$stepwise.lda
$stepwise.lda$max.p
[1] 15

$stepwise.lda$errors
 [1] 0.18691589 0.07476636 0.05607477 0.04672897 0.04672897 0.04672897
 [7] 0.05140187 0.05140187 0.04672897 0.04672897 0.04672897 0.04672897
[13] 0.04672897 0.05607477 0.06542056

$stepwise.lda$confusion.table
   step              error added.var added.var.name CTL.CTL CTL.MET CTL.PHO
1     1  0.186915887850467         4      Pho4p.g.1      64      15       1
2     2  0.074766355140187        10        Met4p.1      73       3       4
3     3 0.0560747663551402         1        Pho4p.1      74       3       3
4     4 0.0467289719626168         7      Pho4p.t.1      74       3       3
5     5 0.0467289719626168         3        Pho4p.3      74       3       3
6     6 0.0467289719626168         8      Pho4p.t.2      75       2       3
7     7 0.0514018691588785         2        Pho4p.2      75       2       3
8     8 0.0514018691588785         5      Pho4p.g.2      75       1       4
9     9 0.0467289719626168        12        Met4p.3      75       1       4
10   10 0.0467289719626168         9      Pho4p.t.3      75       1       4
11   11 0.0467289719626168        11        Met4p.2      75       1       4
12   12 0.0467289719626168        15       Met31p.3      74       2       4
13   13 0.0467289719626168        14       Met31p.2      74       2       4
14   14 0.0560747663551402         6      Pho4p.g.3      73       3       4
15   15 0.0654205607476636        13       Met31p.1      73       3       4
   MET.CTL MET.MET MET.PHO PHO.CTL PHO.MET PHO.PHO
1       11      74       7       0       6      36
2        3      87       2       3       1      38
3        3      86       3       0       0      42
4        3      88       1       0       0      42
5        3      88       1       0       0      42
6        3      87       2       0       0      42
7        3      86       3       0       0      42
8        3      86       3       0       0      42
9        2      87       3       0       0      42
10       2      87       3       0       0      42
11       2      87       3       0       0      42
12       2      88       2       0       0      42
13       2      88       2       0       0      42
14       2      88       2       0       1      41
15       2      87       3       0       2      40

$stepwise.lda$best.pda
$stepwise.lda$best.pda$class
  [1] PHO PHO MET PHO PHO PHO CTL CTL CTL CTL CTL PHO CTL MET MET PHO PHO CTL
 [19] PHO PHO CTL CTL CTL CTL CTL MET PHO CTL PHO PHO PHO CTL MET MET PHO CTL
 [37] PHO PHO MET MET CTL PHO MET MET MET PHO PHO CTL CTL PHO PHO CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET CTL MET MET PHO MET CTL CTL CTL
 [73] CTL CTL MET MET CTL MET PHO CTL CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET PHO PHO PHO CTL PHO PHO CTL PHO CTL MET MET MET MET MET MET CTL PHO
[109] CTL PHO PHO MET CTL MET MET MET MET CTL MET CTL PHO CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET CTL MET CTL CTL PHO PHO MET
[145] MET MET MET MET MET MET CTL PHO CTL CTL MET MET MET CTL CTL CTL PHO CTL
[163] CTL CTL PHO MET PHO MET CTL CTL MET MET PHO PHO PHO MET CTL PHO CTL CTL
[181] PHO CTL MET MET MET CTL CTL CTL MET MET CTL CTL CTL PHO PHO MET CTL CTL
[199] CTL PHO MET MET CTL MET MET MET CTL MET CTL CTL CTL MET MET MET
Levels: CTL MET PHO

$stepwise.lda$best.pda$posterior
                   CTL          MET          PHO
YAL002W   5.904518e-04 2.861259e-03 9.965483e-01
YAL038W   6.805389e-02 3.219962e-04 9.316241e-01
YAR064W   1.605590e-08 9.743119e-01 2.568809e-02
YAR069C   2.210306e-03 1.036715e-03 9.967530e-01
YAR070C   2.572935e-06 6.235855e-05 9.999351e-01
YAR071W   4.875471e-06 7.408873e-05 9.999210e-01
YBL005W   9.999996e-01 3.359509e-07 2.078091e-08
YBL030C   9.999988e-01 1.054673e-06 1.599454e-07
YBR006W   9.580131e-01 4.196476e-02 2.218344e-05
YBR018C   9.999986e-01 1.383025e-06 6.014554e-08
YBR020W   9.999996e-01 3.818174e-07 7.016604e-09
YBR093C   3.498641e-06 4.516424e-06 9.999920e-01
YBR115C   9.999971e-01 2.900222e-06 3.910040e-08
YBR184W   4.495624e-01 5.503752e-01 6.240255e-05
YBR213W   1.885371e-01 8.114161e-01 4.680299e-05
YBR222C   5.483197e-03 4.732420e-01 5.212748e-01
YBR296C   1.008833e-07 8.665936e-07 9.999990e-01
YCL018W   9.999242e-01 7.576469e-05 2.657987e-08
YCR047C   2.528619e-04 2.156157e-03 9.975910e-01
YCR098C   1.367635e-05 9.223126e-04 9.990640e-01
YDL131W   9.997785e-01 2.191519e-04 2.318735e-06
YDL182W   9.999581e-01 2.919327e-05 1.272096e-05
YDL205C   1.000000e+00 3.087267e-08 2.518326e-09
YDL210W   9.997798e-01 2.198199e-04 3.393032e-07
YDR011W   9.998926e-01 1.071745e-04 1.764126e-07
YDR023W   1.316416e-04 9.998649e-01 3.417461e-06
YDR041W   4.168521e-05 6.571036e-04 9.993012e-01
YDR044W   9.999996e-01 4.355872e-07 1.830749e-09
YDR054C   2.657617e-05 2.263000e-03 9.977104e-01
YDR055W   5.783974e-06 6.801790e-04 9.993140e-01
YDR169C   8.145324e-10 9.103925e-05 9.999090e-01
YDR234W   9.993122e-01 5.042718e-04 1.835169e-04
YDR253C   5.544538e-04 9.994386e-01 6.903576e-06
YDR254W   3.432255e-04 9.996391e-01 1.765578e-05
YDR281C   3.404812e-04 2.021172e-04 9.994574e-01
YDR285W   9.981698e-01 1.830158e-03 5.578022e-09
YDR310C   1.374652e-07 2.389457e-06 9.999975e-01
YDR311W   8.748968e-07 2.601535e-06 9.999965e-01
YDR381C-A 1.371443e-04 9.998626e-01 2.532711e-07
YDR382W   1.660747e-04 9.998338e-01 1.323948e-07
YDR406W   9.999992e-01 7.612059e-07 5.416933e-08
YDR481C   2.116435e-03 5.768525e-05 9.978259e-01
YDR502C   1.038794e-02 9.894938e-01 1.182749e-04
YDR508C   1.552931e-03 9.975335e-01 9.135598e-04
YDR510W   1.776580e-03 9.967145e-01 1.508923e-03
YEL017C-A 2.094207e-05 3.212842e-05 9.999469e-01
YEL017W   1.629714e-04 4.985698e-05 9.997872e-01
YEL021W   9.999934e-01 6.552200e-06 6.011291e-10
YEL039C   9.999932e-01 6.754531e-06 1.049104e-08
YEL044W   2.378445e-04 2.749753e-02 9.722646e-01
YEL046C   3.185867e-03 2.202931e-02 9.747848e-01
YER026C   9.988790e-01 1.101205e-03 1.978589e-05
YER086W   9.999993e-01 6.984847e-07 1.426897e-11
YER091C-A 5.144134e-04 9.994730e-01 1.257407e-05
YER091C   4.338821e-06 9.993742e-01 6.214548e-04
YER092W   4.338821e-06 9.993742e-01 6.214548e-04
YER125W   2.406526e-04 9.997451e-01 1.428137e-05
YER179W   9.999987e-01 1.152156e-06 1.118823e-07
YFL023W   1.819185e-04 9.998024e-01 1.572652e-05
YFL024C   1.819185e-04 9.998024e-01 1.572652e-05
YFL031W   1.016467e-06 9.999937e-01 5.254648e-06
YFL032W   3.439059e-06 9.999949e-01 1.664126e-06
YFL033C   1.016467e-06 9.999937e-01 5.254648e-06
YFR030W   7.018017e-06 9.999910e-01 2.027139e-06
YGL009C   9.999983e-01 1.745538e-06 1.254623e-09
YGL055W   9.891647e-07 9.998751e-01 1.239435e-04
YGL056C   5.987143e-07 9.999086e-01 9.075931e-05
YGL073W   3.079458e-01 7.017059e-02 6.218837e-01
YGL125W   3.021430e-05 9.998647e-01 1.050555e-04
YGL213C   8.460609e-01 1.513258e-04 1.537878e-01
YGR019W   9.999200e-01 7.805815e-05 1.984248e-06
YGR044C   9.993974e-01 2.285705e-04 3.740748e-04
YGR088W   9.993790e-01 3.871271e-04 2.338265e-04
YGR121C   1.000000e+00 2.795138e-08 1.955241e-08
YGR154C   3.925378e-04 9.992317e-01 3.757974e-04
YGR155W   2.545242e-04 9.994503e-01 2.951538e-04
YGR157W   6.804288e-01 3.195122e-01 5.899514e-05
YGR204W   2.219556e-04 9.734844e-01 2.629359e-02
YGR233C   3.190056e-07 5.357466e-04 9.994639e-01
YGR281W   3.934928e-01 3.789555e-01 2.275517e-01
YHL022C   9.999996e-01 4.182840e-07 2.972542e-10
YHL036W   4.370183e-03 9.042774e-01 9.135244e-02
YHR001W-A 1.111696e-05 9.999122e-01 7.664893e-05
YHR007C   9.984840e-01 1.512151e-03 3.875237e-06
YHR008C   9.996492e-01 3.435299e-04 7.266970e-06
YHR014W   9.315909e-01 6.829068e-02 1.184228e-04
YHR037W   9.779044e-01 3.004854e-03 1.909070e-02
YHR046C   1.594672e-04 9.997242e-01 1.162961e-04
YHR082C   5.617699e-05 9.998747e-01 6.915668e-05
YHR083W   9.578971e-04 9.989444e-01 9.767079e-05
YHR089C   6.758870e-04 9.959688e-01 3.355273e-03
YHR107C   5.210746e-02 3.959778e-03 9.439328e-01
YHR136C   5.789948e-08 1.542511e-02 9.845748e-01
YHR137W   2.794997e-08 1.860781e-02 9.813922e-01
YHR153C   9.996034e-01 2.187018e-04 1.779441e-04
YHR168W   3.021142e-07 1.361802e-03 9.986379e-01
YHR215W   4.875471e-06 7.408873e-05 9.999210e-01
YIL015W   9.999450e-01 5.497421e-05 6.549609e-08
YIL046W   1.725597e-03 1.207916e-02 9.861952e-01
YIL072W   9.997720e-01 2.255364e-04 2.468332e-06
YIL092W   3.505122e-04 9.942819e-01 5.367617e-03
YIL106W   4.154369e-04 9.976547e-01 1.929874e-03
YIL107C   2.143558e-05 9.987005e-01 1.278019e-03
YIL126W   2.742014e-03 9.948704e-01 2.387627e-03
YIL127C   6.402081e-06 9.996410e-01 3.525823e-04
YIR017C   7.571026e-05 9.999186e-01 5.706924e-06
YIR034C   9.132109e-01 7.536561e-04 8.603544e-02
YJL012C   5.582924e-07 2.299447e-06 9.999971e-01
YJL106W   9.998695e-01 1.121951e-04 1.825880e-05
YJL117W   3.737522e-05 2.171888e-02 9.782437e-01
YJL119C   1.815865e-02 1.636889e-01 8.181525e-01
YJL129C   6.917060e-04 9.911924e-01 8.115864e-03
YJL153C   9.982993e-01 1.694570e-03 6.166406e-06
YJL167W   3.882737e-05 9.986459e-01 1.315289e-03
YJL168C   1.588425e-04 9.986328e-01 1.208318e-03
YJL186W   3.727648e-06 9.999962e-01 1.191883e-07
YJL187C   3.727648e-06 9.999962e-01 1.191883e-07
YJL219W   9.998957e-01 6.094736e-05 4.331273e-05
YJR010W   4.854300e-06 9.999926e-01 2.503987e-06
YJR048W   9.891344e-01 1.084067e-02 2.487904e-05
YJR073C   2.207144e-01 6.672692e-02 7.125587e-01
YJR094C   9.999046e-01 8.841786e-06 8.657839e-05
YJR095W   7.694412e-05 9.999211e-01 1.961267e-06
YJR113C   6.380151e-05 9.999341e-01 2.058412e-06
YJR115W   2.787851e-05 9.999699e-01 2.197360e-06
YJR137C   1.730780e-03 9.976461e-01 6.231632e-04
YJR138W   9.040279e-06 9.999837e-01 7.279147e-06
YJR139C   2.668260e-04 9.997324e-01 7.342543e-07
YJR152W   7.819412e-01 2.173825e-01 6.763263e-04
YKL001C   1.162095e-09 1.000000e+00 2.112353e-09
YKL007W   4.061841e-04 9.882450e-01 1.134878e-02
YKL008C   4.061841e-04 9.882450e-01 1.134878e-02
YKL015W   2.306146e-05 9.999731e-01 3.800133e-06
YKL016C   6.749655e-06 9.999905e-01 2.734029e-06
YKL088W   1.185540e-04 9.991129e-01 7.685089e-04
YKL128C   1.399232e-03 9.956678e-01 2.932990e-03
YKL139W   3.779491e-06 9.997720e-01 2.242557e-04
YKL182W   9.983933e-01 1.606432e-03 3.083867e-07
YKL192C   1.067950e-03 9.989308e-01 1.295834e-06
YKL216W   9.999996e-01 3.472570e-07 3.192045e-09
YKR039W   1.000000e+00 2.389517e-08 2.420347e-10
YKR048C   6.001331e-06 2.354900e-03 9.976391e-01
YKR050W   6.087748e-06 2.361320e-03 9.976326e-01
YKR068C   1.113196e-06 9.871536e-01 1.284528e-02
YKR069W   1.289166e-06 9.879952e-01 1.200355e-02
YLL008W   6.291252e-04 9.993507e-01 2.018787e-05
YLL010C   8.066995e-04 9.991468e-01 4.651529e-05
YLR050C   2.826469e-05 9.986046e-01 1.367096e-03
YLR081W   7.085741e-03 9.929058e-01 8.467458e-06
YLR092W   3.621856e-05 9.998247e-01 1.391229e-04
YLR142W   6.848550e-01 3.143941e-01 7.508804e-04
YLR162W   2.956996e-04 3.667287e-01 6.329756e-01
YLR180W   9.993335e-01 5.136214e-06 6.613268e-04
YLR263W   9.999717e-01 2.819107e-05 6.443221e-08
YLR278C   3.629924e-05 9.969365e-01 3.027228e-03
YLR283W   8.537047e-05 9.983843e-01 1.530345e-03
YLR303W   5.844368e-05 9.998917e-01 4.983161e-05
YLR329W   9.997410e-01 2.570751e-04 1.916837e-06
YLR420W   9.999911e-01 7.368711e-06 1.564727e-06
YLR438W   9.998832e-01 8.362251e-05 3.322217e-05
YML018C   1.310589e-05 1.741004e-01 8.258865e-01
YML051W   9.999971e-01 2.933125e-06 7.777966e-09
YML054C   9.413125e-01 2.561241e-02 3.307505e-02
YML075C   9.999992e-01 7.347684e-07 6.293830e-08
YML121W   7.494111e-06 1.912498e-03 9.980800e-01
YML122C   1.776985e-04 5.451421e-01 4.546802e-01
YML123C   7.546490e-09 9.605120e-09 1.000000e+00
YMR061W   3.593795e-05 9.992532e-01 7.108496e-04
YMR108W   9.990635e-01 9.364497e-04 2.103032e-08
YMR133W   9.999230e-01 7.700360e-05 2.579370e-09
YMR216C   1.388800e-04 9.996899e-01 1.712511e-04
YMR217W   1.940710e-04 9.996811e-01 1.248048e-04
YMR253C   1.422121e-06 6.071588e-02 9.392827e-01
YMR255W   1.422121e-06 6.071588e-02 9.392827e-01
YMR271C   3.312819e-04 2.033175e-02 9.793370e-01
YMR301C   1.271180e-04 9.998729e-01 1.110390e-08
YNL052W   9.987404e-01 1.259180e-03 4.254754e-07
YNL104C   7.766560e-02 9.941212e-03 9.123932e-01
YNL142W   9.999971e-01 2.931816e-06 2.770898e-09
YNL210W   9.999973e-01 2.677124e-06 4.883671e-09
YNL231C   1.075843e-05 5.505518e-05 9.999342e-01
YNL241C   9.999983e-01 1.369817e-07 1.523121e-06
YNL259C   5.249328e-07 9.999995e-01 5.944678e-09
YNL260C   2.016372e-06 9.999980e-01 1.653257e-09
YNL277W   3.191144e-08 9.999986e-01 1.325628e-06
YNR001C   1.000000e+00 5.744182e-09 4.211224e-09
YNR050C   9.851307e-01 1.198552e-03 1.367070e-02
YOL006C   9.999122e-01 8.163470e-05 6.132806e-06
YOL100W   5.074672e-05 9.650762e-01 3.487304e-02
YOR054C   6.871030e-06 9.457058e-01 5.428730e-02
YOR065W   7.290797e-01 1.050954e-01 1.658249e-01
YOR120W   9.997891e-01 2.105937e-04 2.625131e-07
YOR153W   9.995300e-01 4.099631e-04 5.999333e-05
YOR162C   1.271810e-04 2.351566e-04 9.996377e-01
YOR163W   1.187805e-04 1.864545e-04 9.996948e-01
YOR299W   1.114080e-03 9.988851e-01 8.593577e-07
YOR328W   9.997160e-01 2.748808e-04 9.093753e-06
YOR351C   9.998481e-01 1.519117e-04 1.976397e-08
YOR375C   9.999783e-01 1.155851e-06 2.052641e-05
YOR377W   1.279321e-04 7.457168e-02 9.253004e-01
YOR378W   3.194602e-05 9.999434e-01 2.460474e-05
YPL093W   7.960743e-04 9.992034e-01 5.398894e-07
YPL111W   9.999999e-01 5.411549e-08 3.611412e-09
YPL189W   7.437739e-06 9.985549e-01 1.437687e-03
YPL204W   4.710016e-06 9.999937e-01 1.541841e-06
YPL206C   4.440866e-06 9.999942e-01 1.403963e-06
YPL231W   9.965172e-01 1.176871e-03 2.305888e-03
YPL250C   5.348195e-05 9.881093e-01 1.183720e-02
YPR065W   5.357076e-01 4.642563e-01 3.612480e-05
YPR138C   1.000000e+00 7.223601e-09 9.189765e-11
YPR145W   9.965361e-01 3.313296e-03 1.506298e-04
YPR167C   9.949663e-04 9.990007e-01 4.345586e-06
YPR199C   1.608266e-04 9.981097e-01 1.729479e-03
YPR201W   4.308196e-04 9.987305e-01 8.386320e-04

$stepwise.lda$best.pda$call
lda(x = data.training, grouping = labels.training, CV = loo, 
    na.action = na.omit)

$stepwise.lda$best.pda$training.names
  [1] "YAL002W"   "YAL038W"   "YAR064W"   "YAR069C"   "YAR070C"   "YAR071W"  
  [7] "YBL005W"   "YBL030C"   "YBR006W"   "YBR018C"   "YBR020W"   "YBR093C"  
 [13] "YBR115C"   "YBR184W"   "YBR213W"   "YBR222C"   "YBR296C"   "YCL018W"  
 [19] "YCR047C"   "YCR098C"   "YDL131W"   "YDL182W"   "YDL205C"   "YDL210W"  
 [25] "YDR011W"   "YDR023W"   "YDR041W"   "YDR044W"   "YDR054C"   "YDR055W"  
 [31] "YDR169C"   "YDR234W"   "YDR253C"   "YDR254W"   "YDR281C"   "YDR285W"  
 [37] "YDR310C"   "YDR311W"   "YDR381C-A" "YDR382W"   "YDR406W"   "YDR481C"  
 [43] "YDR502C"   "YDR508C"   "YDR510W"   "YEL017C-A" "YEL017W"   "YEL021W"  
 [49] "YEL039C"   "YEL044W"   "YEL046C"   "YER026C"   "YER086W"   "YER091C-A"
 [55] "YER091C"   "YER092W"   "YER125W"   "YER179W"   "YFL023W"   "YFL024C"  
 [61] "YFL031W"   "YFL032W"   "YFL033C"   "YFR030W"   "YGL009C"   "YGL055W"  
 [67] "YGL056C"   "YGL073W"   "YGL125W"   "YGL213C"   "YGR019W"   "YGR044C"  
 [73] "YGR088W"   "YGR121C"   "YGR154C"   "YGR155W"   "YGR157W"   "YGR204W"  
 [79] "YGR233C"   "YGR281W"   "YHL022C"   "YHL036W"   "YHR001W-A" "YHR007C"  
 [85] "YHR008C"   "YHR014W"   "YHR037W"   "YHR046C"   "YHR082C"   "YHR083W"  
 [91] "YHR089C"   "YHR107C"   "YHR136C"   "YHR137W"   "YHR153C"   "YHR168W"  
 [97] "YHR215W"   "YIL015W"   "YIL046W"   "YIL072W"   "YIL092W"   "YIL106W"  
[103] "YIL107C"   "YIL126W"   "YIL127C"   "YIR017C"   "YIR034C"   "YJL012C"  
[109] "YJL106W"   "YJL117W"   "YJL119C"   "YJL129C"   "YJL153C"   "YJL167W"  
[115] "YJL168C"   "YJL186W"   "YJL187C"   "YJL219W"   "YJR010W"   "YJR048W"  
[121] "YJR073C"   "YJR094C"   "YJR095W"   "YJR113C"   "YJR115W"   "YJR137C"  
[127] "YJR138W"   "YJR139C"   "YJR152W"   "YKL001C"   "YKL007W"   "YKL008C"  
[133] "YKL015W"   "YKL016C"   "YKL088W"   "YKL128C"   "YKL139W"   "YKL182W"  
[139] "YKL192C"   "YKL216W"   "YKR039W"   "YKR048C"   "YKR050W"   "YKR068C"  
[145] "YKR069W"   "YLL008W"   "YLL010C"   "YLR050C"   "YLR081W"   "YLR092W"  
[151] "YLR142W"   "YLR162W"   "YLR180W"   "YLR263W"   "YLR278C"   "YLR283W"  
[157] "YLR303W"   "YLR329W"   "YLR420W"   "YLR438W"   "YML018C"   "YML051W"  
[163] "YML054C"   "YML075C"   "YML121W"   "YML122C"   "YML123C"   "YMR061W"  
[169] "YMR108W"   "YMR133W"   "YMR216C"   "YMR217W"   "YMR253C"   "YMR255W"  
[175] "YMR271C"   "YMR301C"   "YNL052W"   "YNL104C"   "YNL142W"   "YNL210W"  
[181] "YNL231C"   "YNL241C"   "YNL259C"   "YNL260C"   "YNL277W"   "YNR001C"  
[187] "YNR050C"   "YOL006C"   "YOL100W"   "YOR054C"   "YOR065W"   "YOR120W"  
[193] "YOR153W"   "YOR162C"   "YOR163W"   "YOR299W"   "YOR328W"   "YOR351C"  
[199] "YOR375C"   "YOR377W"   "YOR378W"   "YPL093W"   "YPL111W"   "YPL189W"  
[205] "YPL204W"   "YPL206C"   "YPL231W"   "YPL250C"   "YPR065W"   "YPR138C"  
[211] "YPR145W"   "YPR167C"   "YPR199C"   "YPR201W"  

$stepwise.lda$best.pda$training.label
  [1] PHO CTL MET PHO PHO PHO CTL CTL CTL CTL CTL PHO CTL CTL MET PHO PHO CTL
 [19] PHO PHO CTL CTL CTL CTL CTL MET PHO CTL PHO PHO PHO CTL MET MET PHO CTL
 [37] PHO PHO MET MET CTL PHO MET MET MET PHO PHO CTL CTL PHO PHO CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET CTL MET MET CTL MET CTL CTL CTL
 [73] CTL CTL MET MET CTL MET PHO CTL CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET PHO PHO PHO CTL PHO PHO CTL MET CTL MET MET MET MET MET MET CTL PHO
[109] CTL PHO PHO MET CTL MET MET MET MET CTL MET CTL CTL CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET CTL MET CTL CTL PHO PHO MET
[145] MET MET MET MET CTL MET CTL MET MET CTL MET MET MET CTL CTL CTL PHO CTL
[163] CTL CTL PHO MET PHO MET CTL CTL MET MET PHO PHO PHO MET CTL CTL CTL CTL
[181] PHO MET MET MET MET CTL CTL CTL MET MET CTL CTL CTL PHO PHO MET CTL CTL
[199] CTL PHO MET MET CTL MET MET MET CTL MET CTL CTL CTL MET MET MET
Levels: CTL MET PHO

$stepwise.lda$best.pda$pda.method
[1] "lda"

$stepwise.lda$best.pda$loo
[1] TRUE

$stepwise.lda$best.pda$validation
[1] "LOO"

$stepwise.lda$best.pda$confusion
      true
object CTL MET PHO
   CTL  74   2   0
   MET   2  88   0
   PHO   4   2  42
attr(,"error")
[1] 0.04672897


$stepwise.lda$best.p
[1] 13

$stepwise.lda$best.vars
 [1]  4 10  1  7  3  8  2  5 12  9 11 15 14

$stepwise.lda$best.var.names
 [1] "Pho4p.g.1" "Met4p.1"   "Pho4p.1"   "Pho4p.t.1" "Pho4p.3"   "Pho4p.t.2"
 [7] "Pho4p.2"   "Pho4p.g.2" "Met4p.3"   "Pho4p.t.3" "Met4p.2"   "Met31p.3" 
[13] "Met31p.2" 

$stepwise.lda$best.error
[1] 0.04672897

$stepwise.lda$pc.transform
[1] FALSE

$stepwise.lda$var.order
 [1]  4 10  1  7  3  8  2  5 12  9 11 15 14  6 13


$pc.stepwise.lda
$pc.stepwise.lda$max.p
[1] 15

$pc.stepwise.lda$errors
 [1] 0.28504673 0.12149533 0.08411215 0.06542056 0.06542056 0.07009346
 [7] 0.06542056 0.05607477 0.05607477 0.06074766 0.06074766 0.05140187
[13] 0.05140187 0.05140187 0.06542056

$pc.stepwise.lda$confusion.table
   step              error added.var added.var.name CTL.CTL CTL.MET CTL.PHO
1     1  0.285046728971963         1         Comp.1      65      15       0
2     2  0.121495327102804         2         Comp.2      69       8       3
3     3 0.0841121495327103         8         Comp.8      70       6       4
4     4 0.0654205607476636         5         Comp.5      70       9       1
5     5 0.0654205607476636         3         Comp.3      70       9       1
6     6 0.0700934579439252        13        Comp.13      70       9       1
7     7 0.0654205607476636         7         Comp.7      71       7       2
8     8 0.0560747663551402        14        Comp.14      71       7       2
9     9 0.0560747663551402        10        Comp.10      71       7       2
10   10 0.0607476635514018        11        Comp.11      71       7       2
11   11 0.0607476635514018         4         Comp.4      72       5       3
12   12 0.0514018691588785        15        Comp.15      73       4       3
13   13 0.0514018691588785         6         Comp.6      74       3       3
14   14 0.0514018691588785        12        Comp.12      74       3       3
15   15 0.0654205607476636         9         Comp.9      73       3       4
   MET.CTL MET.MET MET.PHO PHO.CTL PHO.MET PHO.PHO
1       15      73       4       1      26      15
2        4      85       3       1       7      34
3        2      89       1       3       2      37
4        2      89       1       0       1      41
5        2      89       1       0       1      41
6        2      88       2       0       1      41
7        2      89       1       0       2      40
8        2      89       1       0       0      42
9        2      89       1       0       0      42
10       2      89       1       0       1      41
11       2      87       3       0       0      42
12       2      88       2       0       0      42
13       2      87       3       0       0      42
14       2      87       3       0       0      42
15       2      87       3       0       2      40

$pc.stepwise.lda$best.pda
$pc.stepwise.lda$best.pda$class
  [1] PHO CTL MET PHO PHO PHO CTL CTL CTL CTL CTL PHO CTL CTL MET PHO PHO CTL
 [19] PHO PHO CTL CTL CTL CTL CTL MET PHO CTL PHO PHO PHO CTL MET MET PHO CTL
 [37] PHO PHO MET MET CTL PHO MET MET MET PHO PHO CTL CTL PHO PHO CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET CTL MET MET PHO MET CTL CTL CTL
 [73] CTL CTL MET MET MET MET PHO MET CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET PHO PHO PHO CTL PHO PHO CTL PHO CTL MET MET MET MET MET MET CTL PHO
[109] CTL PHO PHO MET CTL MET MET MET MET CTL MET CTL PHO CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET CTL MET CTL CTL PHO PHO MET
[145] MET MET MET MET MET MET CTL PHO CTL CTL MET MET MET CTL CTL CTL PHO CTL
[163] CTL CTL PHO PHO PHO MET CTL CTL MET MET PHO PHO PHO MET CTL PHO CTL CTL
[181] PHO CTL MET MET MET CTL CTL CTL MET MET CTL CTL CTL PHO PHO MET CTL CTL
[199] CTL PHO MET MET CTL MET MET MET CTL MET CTL CTL CTL MET MET MET
Levels: CTL MET PHO

$pc.stepwise.lda$best.pda$posterior
                   CTL          MET          PHO
YAL002W   2.235940e-03 1.388193e-03 9.963759e-01
YAL038W   6.036826e-01 1.647915e-05 3.963010e-01
YAR064W   5.521521e-08 9.672625e-01 3.273743e-02
YAR069C   6.074426e-04 1.374857e-03 9.980177e-01
YAR070C   1.191140e-05 1.441431e-05 9.999737e-01
YAR071W   2.268815e-06 1.697467e-04 9.998280e-01
YBL005W   1.000000e+00 2.679382e-08 7.938401e-09
YBL030C   9.999998e-01 1.257929e-07 7.483930e-08
YBR006W   9.226971e-01 7.728362e-02 1.927561e-05
YBR018C   9.999976e-01 2.324072e-06 8.645253e-08
YBR020W   9.999999e-01 1.327693e-07 5.065956e-09
YBR093C   2.675940e-06 3.052050e-06 9.999943e-01
YBR115C   9.999996e-01 3.717500e-07 1.464832e-08
YBR184W   6.308668e-01 3.690397e-01 9.354584e-05
YBR213W   1.438097e-02 9.856039e-01 1.507930e-05
YBR222C   3.656565e-03 3.761583e-01 6.201851e-01
YBR296C   1.092763e-06 9.781758e-08 9.999988e-01
YCL018W   9.999692e-01 3.077064e-05 1.978575e-08
YCR047C   8.207753e-05 2.092143e-03 9.978258e-01
YCR098C   7.217191e-05 4.490287e-04 9.994788e-01
YDL131W   9.999163e-01 8.179773e-05 1.913363e-06
YDL182W   9.999905e-01 2.566896e-06 6.963461e-06
YDL205C   1.000000e+00 5.313291e-09 1.538684e-09
YDL210W   9.975852e-01 2.413794e-03 9.839897e-07
YDR011W   9.991934e-01 8.060985e-04 5.134476e-07
YDR023W   8.784336e-06 9.999902e-01 9.733409e-07
YDR041W   1.775886e-04 1.652307e-04 9.996572e-01
YDR044W   9.999999e-01 9.097150e-08 1.630019e-09
YDR054C   1.338272e-05 3.758878e-03 9.962277e-01
YDR055W   1.932380e-06 9.563436e-04 9.990417e-01
YDR169C   3.625087e-10 1.372979e-04 9.998627e-01
YDR234W   9.996644e-01 1.674840e-04 1.681589e-04
YDR253C   9.289176e-05 9.999058e-01 1.337669e-06
YDR254W   9.100839e-05 9.999045e-01 4.498715e-06
YDR281C   1.418818e-04 2.178967e-04 9.996402e-01
YDR285W   9.994562e-01 5.438283e-04 3.252929e-09
YDR310C   6.305669e-08 2.394528e-06 9.999975e-01
YDR311W   5.081127e-07 1.866526e-06 9.999976e-01
YDR381C-A 2.498745e-05 9.999749e-01 1.223898e-07
YDR382W   7.352451e-05 9.999264e-01 1.018856e-07
YDR406W   9.999996e-01 3.229648e-07 4.945920e-08
YDR481C   4.713113e-03 9.983603e-05 9.951871e-01
YDR502C   8.956098e-05 9.999068e-01 3.624306e-06
YDR508C   2.347943e-04 9.991936e-01 5.716373e-04
YDR510W   2.501594e-04 9.990767e-01 6.731075e-04
YEL017C-A 7.456619e-06 3.697687e-05 9.999556e-01
YEL017W   5.139861e-04 1.576995e-05 9.994702e-01
YEL021W   9.999978e-01 2.182808e-06 3.880205e-10
YEL039C   9.999986e-01 1.431957e-06 8.670022e-09
YEL044W   1.018540e-04 3.100486e-02 9.688933e-01
YEL046C   1.772339e-03 1.579843e-02 9.824292e-01
YER026C   9.982074e-01 1.763190e-03 2.939068e-05
YER086W   1.000000e+00 4.501708e-08 5.033837e-12
YER091C-A 3.300734e-03 9.966610e-01 3.828807e-05
YER091C   3.850631e-06 9.993591e-01 6.370257e-04
YER092W   3.850631e-06 9.993591e-01 6.370257e-04
YER125W   1.894629e-04 9.998006e-01 9.897305e-06
YER179W   9.999999e-01 9.385141e-08 1.991262e-08
YFL023W   2.365080e-05 9.999699e-01 6.400355e-06
YFL024C   4.580693e-05 9.999461e-01 8.087832e-06
YFL031W   3.172942e-06 9.999878e-01 9.056706e-06
YFL032W   1.375948e-05 9.999824e-01 3.885268e-06
YFL033C   3.172942e-06 9.999878e-01 9.056706e-06
YFR030W   5.462533e-06 9.999926e-01 1.926540e-06
YGL009C   9.999980e-01 1.969038e-06 1.393145e-09
YGL055W   4.590458e-06 9.997690e-01 2.263651e-04
YGL056C   5.176832e-06 9.997743e-01 2.204802e-04
YGL073W   3.705387e-01 1.362838e-02 6.158329e-01
YGL125W   8.079864e-05 9.996691e-01 2.501260e-04
YGL213C   8.648643e-01 3.195796e-05 1.351037e-01
YGR019W   9.763336e-01 2.365400e-02 1.239474e-05
YGR044C   9.987087e-01 4.481618e-04 8.431333e-04
YGR088W   9.997375e-01 8.175854e-05 1.807091e-04
YGR121C   1.000000e+00 2.916583e-09 1.158388e-08
YGR154C   1.577695e-05 9.999492e-01 3.504981e-05
YGR155W   1.751518e-05 9.999477e-01 3.480556e-05
YGR157W   6.264246e-02 9.373151e-01 4.247143e-05
YGR204W   8.375379e-05 9.854763e-01 1.443995e-02
YGR233C   5.686132e-08 2.176668e-03 9.978233e-01
YGR281W   1.121396e-01 7.935692e-01 9.429113e-02
YHL022C   9.999996e-01 4.101358e-07 2.685757e-10
YHL036W   4.333235e-05 9.913828e-01 8.573902e-03
YHR001W-A 1.927415e-04 9.996158e-01 1.914482e-04
YHR007C   9.974041e-01 2.590719e-03 5.170624e-06
YHR008C   9.999207e-01 7.403375e-05 5.270690e-06
YHR014W   9.599580e-01 3.994480e-02 9.716506e-05
YHR037W   9.843929e-01 1.023390e-03 1.458372e-02
YHR046C   9.484209e-06 9.999509e-01 3.964823e-05
YHR082C   5.319571e-04 9.992374e-01 2.306888e-04
YHR083W   7.770469e-03 9.918984e-01 3.311235e-04
YHR089C   1.147394e-03 9.915707e-01 7.281936e-03
YHR107C   3.742326e-02 1.681969e-03 9.608948e-01
YHR136C   1.557832e-08 2.526151e-02 9.747385e-01
YHR137W   9.683559e-09 2.544272e-02 9.745573e-01
YHR153C   9.995162e-01 3.014709e-04 1.823064e-04
YHR168W   2.979239e-06 1.923539e-04 9.998047e-01
YHR215W   2.268815e-06 1.697467e-04 9.998280e-01
YIL015W   9.997784e-01 2.214630e-04 1.003242e-07
YIL046W   5.407853e-03 9.423702e-03 9.851684e-01
YIL072W   9.999609e-01 3.851004e-05 5.652714e-07
YIL092W   1.227060e-04 9.953531e-01 4.524209e-03
YIL106W   7.938930e-04 9.964781e-01 2.728021e-03
YIL107C   1.415265e-05 9.991528e-01 8.330101e-04
YIL126W   1.440216e-03 9.958713e-01 2.688519e-03
YIL127C   5.408895e-06 9.995880e-01 4.065454e-04
YIR017C   1.734317e-05 9.999809e-01 1.789478e-06
YIR034C   8.563111e-01 2.345196e-03 1.413437e-01
YJL012C   7.782732e-07 8.172698e-07 9.999984e-01
YJL106W   9.997785e-01 1.971803e-04 2.430382e-05
YJL117W   2.051998e-05 4.950096e-02 9.504785e-01
YJL119C   6.669466e-03 4.539088e-01 5.394218e-01
YJL129C   1.501666e-03 9.840560e-01 1.444233e-02
YJL153C   9.829016e-01 1.707809e-02 2.028529e-05
YJL167W   4.755891e-06 9.993365e-01 6.587512e-04
YJL168C   1.943507e-05 9.995036e-01 4.769514e-04
YJL186W   1.697052e-04 9.998294e-01 8.893697e-07
YJL187C   1.237764e-05 9.999873e-01 3.634676e-07
YJL219W   9.999796e-01 4.949277e-06 1.546425e-05
YJR010W   4.533204e-08 9.999999e-01 3.773196e-08
YJR048W   9.997205e-01 2.747799e-04 4.686590e-06
YJR073C   3.222634e-01 2.348745e-02 6.542491e-01
YJR094C   9.998546e-01 1.007335e-05 1.353681e-04
YJR095W   1.022027e-04 9.998953e-01 2.474969e-06
YJR113C   2.531281e-04 9.997439e-01 2.973183e-06
YJR115W   1.822706e-04 9.998135e-01 4.245874e-06
YJR137C   2.021314e-02 9.772533e-01 2.533596e-03
YJR138W   7.627196e-05 9.998987e-01 2.505557e-05
YJR139C   1.769043e-04 9.998222e-01 9.030424e-07
YJR152W   9.876825e-01 1.212613e-02 1.913379e-04
YKL001C   1.055982e-09 1.000000e+00 1.265068e-09
YKL007W   9.599454e-04 9.700847e-01 2.895539e-02
YKL008C   9.599454e-04 9.700847e-01 2.895539e-02
YKL015W   9.091073e-06 9.999874e-01 3.474354e-06
YKL016C   3.557627e-07 9.999987e-01 9.068114e-07
YKL088W   4.808328e-04 9.983334e-01 1.185794e-03
YKL128C   1.428745e-03 9.931948e-01 5.376431e-03
YKL139W   2.419768e-06 9.997279e-01 2.697024e-04
YKL182W   9.999359e-01 6.405451e-05 7.994438e-08
YKL192C   6.951952e-04 9.993035e-01 1.292819e-06
YKL216W   9.999999e-01 1.040963e-07 2.520836e-09
YKR039W   9.999999e-01 5.648165e-08 7.253593e-10
YKR048C   2.129631e-05 7.904973e-04 9.991882e-01
YKR050W   2.170912e-05 7.906372e-04 9.991877e-01
YKR068C   3.353930e-07 9.939737e-01 6.025931e-03
YKR069W   3.771433e-07 9.942252e-01 5.774417e-03
YLL008W   2.889131e-04 9.996934e-01 1.772574e-05
YLL010C   5.602155e-04 9.993713e-01 6.851800e-05
YLR050C   3.221237e-07 9.998281e-01 1.716010e-04
YLR081W   3.307239e-02 9.669073e-01 2.034450e-05
YLR092W   7.928134e-05 9.996930e-01 2.277553e-04
YLR142W   9.611437e-01 3.854764e-02 3.087002e-04
YLR162W   1.261956e-04 3.932642e-01 6.066096e-01
YLR180W   9.992664e-01 5.254103e-05 6.810153e-04
YLR263W   9.999885e-01 1.149542e-05 2.531904e-08
YLR278C   3.732475e-05 9.966902e-01 3.272511e-03
YLR283W   3.183478e-05 9.989626e-01 1.005515e-03
YLR303W   6.735225e-06 9.999880e-01 5.247728e-06
YLR329W   9.999260e-01 7.243924e-05 1.566210e-06
YLR420W   9.999937e-01 4.745217e-06 1.587372e-06
YLR438W   9.998839e-01 7.573695e-05 4.037073e-05
YML018C   9.484348e-06 2.774353e-01 7.225552e-01
YML051W   9.999978e-01 2.222040e-06 8.182781e-09
YML054C   9.949867e-01 2.864210e-04 4.726888e-03
YML075C   9.999995e-01 4.231983e-07 5.981923e-08
YML121W   5.041577e-06 1.477024e-03 9.985179e-01
YML122C   5.080311e-04 2.661987e-01 7.332933e-01
YML123C   4.050110e-09 6.587416e-09 1.000000e+00
YMR061W   1.828787e-06 9.998440e-01 1.541973e-04
YMR108W   9.998083e-01 1.917115e-04 1.347313e-08
YMR133W   9.999196e-01 8.036763e-05 3.103784e-09
YMR216C   4.718621e-05 9.998409e-01 1.118714e-04
YMR217W   7.565001e-05 9.998357e-01 8.866370e-05
YMR253C   1.134760e-06 6.697145e-02 9.330274e-01
YMR255W   1.134760e-06 6.697145e-02 9.330274e-01
YMR271C   2.867402e-04 7.326832e-03 9.923864e-01
YMR301C   9.226952e-05 9.999077e-01 1.001410e-08
YNL052W   9.951128e-01 4.886436e-03 7.711022e-07
YNL104C   1.351209e-02 3.139815e-02 9.550898e-01
YNL142W   9.999988e-01 1.167527e-06 2.958576e-09
YNL210W   9.999958e-01 4.147005e-06 8.021628e-09
YNL231C   1.946228e-05 1.457453e-05 9.999660e-01
YNL241C   9.999885e-01 4.643963e-06 6.904385e-06
YNL259C   1.767522e-07 9.999998e-01 3.454871e-09
YNL260C   1.588519e-05 9.999841e-01 6.527460e-09
YNL277W   3.537938e-09 9.999998e-01 2.296527e-07
YNR001C   1.000000e+00 1.925878e-08 7.162093e-09
YNR050C   9.467019e-01 5.113817e-03 4.818425e-02
YOL006C   9.996642e-01 3.171589e-04 1.867278e-05
YOL100W   2.274838e-05 9.763268e-01 2.365046e-02
YOR054C   1.077340e-05 8.835174e-01 1.164718e-01
YOR065W   7.057544e-01 5.171653e-02 2.425291e-01
YOR120W   9.998925e-01 1.073784e-04 8.937341e-08
YOR153W   9.981385e-01 1.686328e-03 1.751764e-04
YOR162C   1.389094e-04 1.586919e-04 9.997024e-01
YOR163W   1.948753e-04 5.108583e-05 9.997540e-01
YOR299W   9.316000e-04 9.990674e-01 1.028792e-06
YOR328W   9.999488e-01 4.576307e-05 5.467344e-06
YOR351C   9.999835e-01 1.653815e-05 1.002316e-08
YOR375C   9.999525e-01 5.997193e-06 4.145474e-05
YOR377W   1.171847e-04 7.519607e-02 9.246867e-01
YOR378W   5.729869e-06 9.999815e-01 1.273910e-05
YPL093W   4.385449e-03 9.956127e-01 1.822524e-06
YPL111W   9.999998e-01 2.284442e-07 9.599385e-09
YPL189W   6.493665e-06 9.979641e-01 2.029384e-03
YPL204W   4.265158e-06 9.999941e-01 1.604760e-06
YPL206C   4.124011e-06 9.999943e-01 1.569346e-06
YPL231W   9.973269e-01 1.272122e-03 1.400997e-03
YPL250C   5.688625e-07 9.987187e-01 1.280779e-03
YPR065W   7.856753e-01 2.143015e-01 2.319963e-05
YPR138C   1.000000e+00 2.551826e-09 7.225124e-11
YPR145W   9.971048e-01 2.698430e-03 1.968090e-04
YPR167C   5.568734e-05 9.999436e-01 7.607132e-07
YPR199C   1.215889e-04 9.977484e-01 2.130051e-03
YPR201W   2.667207e-04 9.987578e-01 9.755089e-04

$pc.stepwise.lda$best.pda$call
lda(x = data.training, grouping = labels.training, CV = loo, 
    na.action = na.omit)

$pc.stepwise.lda$best.pda$training.names
  [1] "YAL002W"   "YAL038W"   "YAR064W"   "YAR069C"   "YAR070C"   "YAR071W"  
  [7] "YBL005W"   "YBL030C"   "YBR006W"   "YBR018C"   "YBR020W"   "YBR093C"  
 [13] "YBR115C"   "YBR184W"   "YBR213W"   "YBR222C"   "YBR296C"   "YCL018W"  
 [19] "YCR047C"   "YCR098C"   "YDL131W"   "YDL182W"   "YDL205C"   "YDL210W"  
 [25] "YDR011W"   "YDR023W"   "YDR041W"   "YDR044W"   "YDR054C"   "YDR055W"  
 [31] "YDR169C"   "YDR234W"   "YDR253C"   "YDR254W"   "YDR281C"   "YDR285W"  
 [37] "YDR310C"   "YDR311W"   "YDR381C-A" "YDR382W"   "YDR406W"   "YDR481C"  
 [43] "YDR502C"   "YDR508C"   "YDR510W"   "YEL017C-A" "YEL017W"   "YEL021W"  
 [49] "YEL039C"   "YEL044W"   "YEL046C"   "YER026C"   "YER086W"   "YER091C-A"
 [55] "YER091C"   "YER092W"   "YER125W"   "YER179W"   "YFL023W"   "YFL024C"  
 [61] "YFL031W"   "YFL032W"   "YFL033C"   "YFR030W"   "YGL009C"   "YGL055W"  
 [67] "YGL056C"   "YGL073W"   "YGL125W"   "YGL213C"   "YGR019W"   "YGR044C"  
 [73] "YGR088W"   "YGR121C"   "YGR154C"   "YGR155W"   "YGR157W"   "YGR204W"  
 [79] "YGR233C"   "YGR281W"   "YHL022C"   "YHL036W"   "YHR001W-A" "YHR007C"  
 [85] "YHR008C"   "YHR014W"   "YHR037W"   "YHR046C"   "YHR082C"   "YHR083W"  
 [91] "YHR089C"   "YHR107C"   "YHR136C"   "YHR137W"   "YHR153C"   "YHR168W"  
 [97] "YHR215W"   "YIL015W"   "YIL046W"   "YIL072W"   "YIL092W"   "YIL106W"  
[103] "YIL107C"   "YIL126W"   "YIL127C"   "YIR017C"   "YIR034C"   "YJL012C"  
[109] "YJL106W"   "YJL117W"   "YJL119C"   "YJL129C"   "YJL153C"   "YJL167W"  
[115] "YJL168C"   "YJL186W"   "YJL187C"   "YJL219W"   "YJR010W"   "YJR048W"  
[121] "YJR073C"   "YJR094C"   "YJR095W"   "YJR113C"   "YJR115W"   "YJR137C"  
[127] "YJR138W"   "YJR139C"   "YJR152W"   "YKL001C"   "YKL007W"   "YKL008C"  
[133] "YKL015W"   "YKL016C"   "YKL088W"   "YKL128C"   "YKL139W"   "YKL182W"  
[139] "YKL192C"   "YKL216W"   "YKR039W"   "YKR048C"   "YKR050W"   "YKR068C"  
[145] "YKR069W"   "YLL008W"   "YLL010C"   "YLR050C"   "YLR081W"   "YLR092W"  
[151] "YLR142W"   "YLR162W"   "YLR180W"   "YLR263W"   "YLR278C"   "YLR283W"  
[157] "YLR303W"   "YLR329W"   "YLR420W"   "YLR438W"   "YML018C"   "YML051W"  
[163] "YML054C"   "YML075C"   "YML121W"   "YML122C"   "YML123C"   "YMR061W"  
[169] "YMR108W"   "YMR133W"   "YMR216C"   "YMR217W"   "YMR253C"   "YMR255W"  
[175] "YMR271C"   "YMR301C"   "YNL052W"   "YNL104C"   "YNL142W"   "YNL210W"  
[181] "YNL231C"   "YNL241C"   "YNL259C"   "YNL260C"   "YNL277W"   "YNR001C"  
[187] "YNR050C"   "YOL006C"   "YOL100W"   "YOR054C"   "YOR065W"   "YOR120W"  
[193] "YOR153W"   "YOR162C"   "YOR163W"   "YOR299W"   "YOR328W"   "YOR351C"  
[199] "YOR375C"   "YOR377W"   "YOR378W"   "YPL093W"   "YPL111W"   "YPL189W"  
[205] "YPL204W"   "YPL206C"   "YPL231W"   "YPL250C"   "YPR065W"   "YPR138C"  
[211] "YPR145W"   "YPR167C"   "YPR199C"   "YPR201W"  

$pc.stepwise.lda$best.pda$training.label
  [1] PHO CTL MET PHO PHO PHO CTL CTL CTL CTL CTL PHO CTL CTL MET PHO PHO CTL
 [19] PHO PHO CTL CTL CTL CTL CTL MET PHO CTL PHO PHO PHO CTL MET MET PHO CTL
 [37] PHO PHO MET MET CTL PHO MET MET MET PHO PHO CTL CTL PHO PHO CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET CTL MET MET CTL MET CTL CTL CTL
 [73] CTL CTL MET MET CTL MET PHO CTL CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET PHO PHO PHO CTL PHO PHO CTL MET CTL MET MET MET MET MET MET CTL PHO
[109] CTL PHO PHO MET CTL MET MET MET MET CTL MET CTL CTL CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET CTL MET CTL CTL PHO PHO MET
[145] MET MET MET MET CTL MET CTL MET MET CTL MET MET MET CTL CTL CTL PHO CTL
[163] CTL CTL PHO MET PHO MET CTL CTL MET MET PHO PHO PHO MET CTL CTL CTL CTL
[181] PHO MET MET MET MET CTL CTL CTL MET MET CTL CTL CTL PHO PHO MET CTL CTL
[199] CTL PHO MET MET CTL MET MET MET CTL MET CTL CTL CTL MET MET MET
Levels: CTL MET PHO

$pc.stepwise.lda$best.pda$pda.method
[1] "lda"

$pc.stepwise.lda$best.pda$loo
[1] TRUE

$pc.stepwise.lda$best.pda$validation
[1] "LOO"

$pc.stepwise.lda$best.pda$confusion
      true
object CTL MET PHO
   CTL  74   2   0
   MET   3  87   0
   PHO   3   3  42
attr(,"error")
[1] 0.05140187


$pc.stepwise.lda$best.p
[1] 14

$pc.stepwise.lda$best.vars
 [1]  1  2  8  5  3 13  7 14 10 11  4 15  6 12

$pc.stepwise.lda$best.var.names
 [1] "Comp.1"  "Comp.2"  "Comp.8"  "Comp.5"  "Comp.3"  "Comp.13" "Comp.7" 
 [8] "Comp.14" "Comp.10" "Comp.11" "Comp.4"  "Comp.15" "Comp.6"  "Comp.12"

$pc.stepwise.lda$best.error
[1] 0.05140187

$pc.stepwise.lda$pc.transform
[1] TRUE

$pc.stepwise.lda$var.order
 [1]  1  2  8  5  3 13  7 14 10 11  4 15  6 12  9


$permut.stepwise.lda
$permut.stepwise.lda$confusion.table
        error CTL.CTL CTL.MET CTL.PHO MET.CTL MET.MET MET.PHO PHO.CTL PHO.MET
1   0.5186916      28      52       0      17      75       0      10      32
2   0.5093458      40      38       2      26      63       3      10      30
3   0.5000000      37      43       0      22      70       0      14      28
4   0.5233645      36      44       0      25      66       1       9      33
5   0.5186916      36      44       0      25      67       0      12      30
6   0.5467290      22      58       0      17      75       0       9      33
7   0.5140187      31      49       0      19      73       0      16      26
8   0.5046729      42      38       0      28      64       0      15      27
9   0.5000000      38      42       0      23      69       0      15      27
10  0.5046729      46      33       1      30      58       4      26      14
11  0.4906542      42      38       0      25      67       0      13      29
12  0.4859813      51      29       0      33      59       0      21      21
13  0.5046729      36      43       1      23      67       2      13      26
14  0.4859813      46      34       0      28      64       0      15      27
15  0.5186916      38      42       0      27      65       0      15      27
16  0.4532710      49      31       0      24      68       0      22      20
17  0.5233645      35      44       1      25      67       0      17      25
18  0.5280374      40      37       3      31      56       5       8      29
19  0.5373832      30      50       0      23      69       0      10      32
20  0.4859813      39      35       6      24      66       2      18      19
21  0.5514019      26      54       0      22      70       0      15      27
22  0.5327103      21      59       0      13      79       0      11      31
23  0.5140187      31      49       0      19      73       0      15      27
24  0.5140187      38      39       3      27      60       5      16      20
25  0.4439252      50      30       0      23      69       0      14      28
26  0.4906542      40      40       0      23      69       0       7      35
27  0.5046729      42      36       2      28      64       0      17      25
28  0.4953271      44      36       0      28      64       0       8      34
29  0.5373832      29      51       0      22      70       0      14      28
30  0.5233645      41      39       0      31      61       0      17      25
31  0.5280374      30      50       0      21      71       0      18      24
32  0.5327103      38      36       6      29      56       7      17      19
33  0.5093458      37      43       0      24      68       0      18      24
34  0.5280374      34      46       0      25      67       0      16      26
35  0.5420561      25      55       0      19      73       0       6      36
36  0.5046729      33      47       0      19      73       0      19      23
37  0.4766355      45      35       0      25      67       0      13      29
38  0.5233645      26      54       0      16      76       0      15      27
39  0.5327103      33      47       0      25      67       0      17      25
40  0.5140187      32      48       0      20      72       0       9      33
41  0.4859813      42      38       0      24      68       0      17      25
42  0.5700935       0      80       0       0      92       0       0      42
43  0.5373832      21      59       0      14      78       0       7      35
44  0.5280374      29      50       1      22      70       0      15      25
45  0.5140187      37      43       0      25      67       0      18      24
46  0.5233645      36      42       2      22      66       4      19      23
47  0.5233645      41      39       0      31      61       0      17      25
48  0.4719626      45      35       0      24      68       0      17      25
49  0.5327103      33      47       0      25      67       0      16      26
50  0.4766355      42      36       2      23      66       3      17      21
51  0.5186916      32      48       0      21      71       0       9      33
52  0.5046729      40      36       4      26      66       0      15      27
53  0.4953271      40      38       2      23      67       2      14      27
54  0.5327103      29      51       0      21      71       0       9      33
55  0.4953271      36      44       0      20      72       0      11      31
56  0.4672897      44      36       0      22      70       0      11      31
57  0.5233645      30      50       0      20      72       0       8      34
58  0.5327103      27      53       0      19      73       0      16      26
59  0.5093458      30      50       0      17      75       0      14      28
60  0.5186916      32      48       0      21      71       0      12      30
61  0.5233645      18      54       8      12      74       6      12      20
62  0.4579439      46      32       2      22      68       2      14      26
63  0.5327103      26      52       2      18      74       0      10      32
64  0.5607477      26      48       6      27      62       3      10      26
65  0.5186916      41      39       0      30      62       0      15      27
66  0.5280374      29      51       0      20      72       0      13      29
67  0.4719626      39      41       0      18      74       0      16      26
68  0.5327103      26      54       0      18      74       0       9      33
69  0.5140187      34      46       0      22      70       0      12      30
70  0.5000000      39      41       0      24      68       0      16      26
71  0.5467290      30      50       0      24      67       1      18      24
72  0.4906542      36      44       0      19      73       0      19      23
73  0.5186916      36      44       0      25      67       0      11      31
74  0.5700935       0      80       0       0      92       0       0      42
75  0.5467290      28      50       2      23      69       0      22      20
76  0.5046729      38      42       0      24      68       0      13      29
77  0.4906542      35      40       5      22      64       6      12      20
78  0.4906542      42      38       0      25      67       0       8      34
79  0.5420561      36      44       0      30      62       0      18      24
80  0.5093458      34      46       0      21      71       0       8      34
81  0.5140187      41      39       0      29      63       0      21      21
82  0.5140187      32      48       0      20      72       0      20      22
83  0.5327103      30      50       0      22      70       0       8      34
84  0.4906542      38      36       6      24      63       5      13      21
85  0.5467290      21      59       0      16      76       0       9      33
86  0.5514019      26      54       0      22      69       1       5      36
87  0.5233645      34      45       1      24      68       0      13      29
88  0.5140187      31      49       0      19      73       0      12      30
89  0.5186916      38      42       0      25      64       3      15      26
90  0.5373832      28      50       2      21      71       0      17      25
91  0.5140187      31      49       0      19      73       0      11      31
92  0.5373832      37      42       1      28      62       2      15      27
93  0.5373832      17      63       0      10      82       0       5      37
94  0.5233645      36      44       0      26      66       0      14      28
95  0.5373832      39      40       1      30      58       4      10      30
96  0.4672897      35      39       6      21      64       7      10      17
97  0.5420561      29      51       0      23      69       0      18      24
98  0.5046729      37      42       1      23      69       0      16      26
99  0.5000000      42      37       1      26      65       1      17      25
100 0.5467290      30      48       2      23      66       3      15      26
    PHO.PHO
1         0
2         2
3         0
4         0
5         0
6         0
7         0
8         0
9         0
10        2
11        0
12        0
13        3
14        0
15        0
16        0
17        0
18        5
19        0
20        5
21        0
22        0
23        0
24        6
25        0
26        0
27        0
28        0
29        0
30        0
31        0
32        6
33        0
34        0
35        0
36        0
37        0
38        0
39        0
40        0
41        0
42        0
43        0
44        2
45        0
46        0
47        0
48        0
49        0
50        4
51        0
52        0
53        1
54        0
55        0
56        0
57        0
58        0
59        0
60        0
61       10
62        2
63        0
64        6
65        0
66        0
67        0
68        0
69        0
70        0
71        0
72        0
73        0
74        0
75        0
76        0
77       10
78        0
79        0
80        0
81        0
82        0
83        0
84        8
85        0
86        1
87        0
88        0
89        1
90        0
91        0
92        0
93        0
94        0
95        2
96       15
97        0
98        0
99        0
100       1

$permut.stepwise.lda$errors
    permut.1  permut.2  permut.3  permut.4  permut.5  permut.6  permut.7
1  0.5420561 0.5280374 0.5514019 0.5514019 0.5327103 0.5560748 0.5373832
2  0.5186916 0.5186916 0.5280374 0.5420561 0.5186916 0.5467290 0.5140187
3  0.5233645 0.5233645 0.5093458 0.5420561 0.5233645 0.5560748 0.5233645
4  0.5327103 0.5373832 0.5093458 0.5420561 0.5373832 0.5607477 0.5373832
5  0.5420561 0.5327103 0.5000000 0.5420561 0.5327103 0.5560748 0.5420561
6  0.5514019 0.5467290 0.5093458 0.5420561 0.5420561 0.5747664 0.5280374
7  0.5747664 0.5186916 0.5140187 0.5233645 0.5560748 0.5747664 0.5327103
8  0.5887850 0.5093458 0.5233645 0.5280374 0.5654206 0.5934579 0.5280374
9  0.5747664 0.5093458 0.5420561 0.5373832 0.5700935 0.5747664 0.5327103
10 0.5747664 0.5186916 0.5373832 0.5560748 0.5607477 0.5841121 0.5420561
11 0.5747664 0.5373832 0.5514019 0.5607477 0.5607477 0.5747664 0.5514019
12 0.5841121 0.5420561 0.5700935 0.5747664 0.5654206 0.5654206 0.5607477
13 0.6028037 0.5654206 0.5700935 0.5887850 0.5887850 0.5747664 0.5747664
14 0.6074766 0.5794393 0.5887850 0.5981308 0.5887850 0.5700935 0.5607477
15 0.6261682 0.6028037 0.5934579 0.6074766 0.6074766 0.5794393 0.5887850
    permut.8  permut.9 permut.10 permut.11 permut.12 permut.13 permut.14
1  0.5280374 0.5327103 0.5327103 0.4906542 0.5327103 0.5233645 0.5280374
2  0.5046729 0.5000000 0.5373832 0.4906542 0.5280374 0.5046729 0.5093458
3  0.5140187 0.5093458 0.5467290 0.4953271 0.5186916 0.5186916 0.5140187
4  0.5233645 0.5140187 0.5186916 0.5093458 0.5280374 0.5140187 0.5140187
5  0.5233645 0.5233645 0.5186916 0.5093458 0.5327103 0.5046729 0.5327103
6  0.5373832 0.5327103 0.5186916 0.5046729 0.5280374 0.5093458 0.5093458
7  0.5373832 0.5373832 0.5186916 0.5093458 0.5000000 0.5233645 0.5140187
8  0.5514019 0.5560748 0.5046729 0.5093458 0.5000000 0.5233645 0.5046729
9  0.5467290 0.5420561 0.5093458 0.5186916 0.4859813 0.5233645 0.5046729
10 0.5747664 0.5467290 0.5186916 0.5327103 0.5000000 0.5373832 0.4953271
11 0.5607477 0.5560748 0.5420561 0.5467290 0.5140187 0.5467290 0.4859813
12 0.5700935 0.5560748 0.5607477 0.5467290 0.5233645 0.5373832 0.4859813
13 0.5794393 0.5747664 0.5794393 0.5514019 0.5373832 0.5420561 0.4906542
14 0.6121495 0.5934579 0.5747664 0.5654206 0.5654206 0.5654206 0.5280374
15 0.6261682 0.5887850 0.5934579 0.5747664 0.5700935 0.5887850 0.5373832
   permut.15 permut.16 permut.17 permut.18 permut.19 permut.20 permut.21
1  0.5233645 0.5373832 0.5280374 0.5373832 0.5373832 0.5373832 0.5607477
2  0.5186916 0.5000000 0.5327103 0.5420561 0.5514019 0.5233645 0.5514019
3  0.5233645 0.4766355 0.5280374 0.5514019 0.5373832 0.5140187 0.5700935
4  0.5186916 0.4532710 0.5467290 0.5280374 0.5420561 0.5140187 0.5794393
5  0.5233645 0.4532710 0.5373832 0.5373832 0.5373832 0.5000000 0.5934579
6  0.5186916 0.4532710 0.5280374 0.5654206 0.5607477 0.5046729 0.6028037
7  0.5280374 0.4579439 0.5233645 0.5607477 0.5607477 0.4906542 0.5887850
8  0.5327103 0.4719626 0.5327103 0.5607477 0.5607477 0.4859813 0.5747664
9  0.5420561 0.4766355 0.5420561 0.5280374 0.5654206 0.4953271 0.5841121
10 0.5373832 0.4859813 0.5560748 0.5467290 0.5654206 0.5186916 0.5887850
11 0.5467290 0.4906542 0.5700935 0.5420561 0.5700935 0.5233645 0.5981308
12 0.5420561 0.4766355 0.5794393 0.5467290 0.5841121 0.5233645 0.6074766
13 0.5560748 0.4859813 0.5934579 0.5514019 0.5747664 0.5233645 0.5981308
14 0.5841121 0.5000000 0.5841121 0.5700935 0.5934579 0.5327103 0.6121495
15 0.5887850 0.5046729 0.6168224 0.6028037 0.6028037 0.5467290 0.6214953
   permut.22 permut.23 permut.24 permut.25 permut.26 permut.27 permut.28
1  0.5327103 0.5233645 0.5467290 0.5046729 0.5093458 0.5140187 0.5420561
2  0.5373832 0.5140187 0.5280374 0.4485981 0.5000000 0.5186916 0.5373832
3  0.5420561 0.5186916 0.5420561 0.4439252 0.4953271 0.5140187 0.4953271
4  0.5607477 0.5233645 0.5420561 0.4485981 0.4906542 0.5186916 0.5000000
5  0.5560748 0.5373832 0.5373832 0.4485981 0.4953271 0.5140187 0.5140187
6  0.5467290 0.5280374 0.5280374 0.4626168 0.5046729 0.5093458 0.5140187
7  0.5560748 0.5280374 0.5233645 0.4532710 0.5093458 0.5046729 0.5233645
8  0.5700935 0.5280374 0.5140187 0.4626168 0.5140187 0.5046729 0.5233645
9  0.5841121 0.5327103 0.5233645 0.4719626 0.5186916 0.5046729 0.5327103
10 0.5887850 0.5514019 0.5373832 0.4813084 0.5327103 0.5140187 0.5420561
11 0.6028037 0.5607477 0.5514019 0.4859813 0.5373832 0.5233645 0.5514019
12 0.6214953 0.5700935 0.5607477 0.4906542 0.5467290 0.5233645 0.5514019
13 0.6261682 0.5607477 0.5654206 0.5140187 0.5654206 0.5233645 0.5700935
14 0.6355140 0.5607477 0.5794393 0.5233645 0.5794393 0.5373832 0.5887850
15 0.6355140 0.5794393 0.5887850 0.5607477 0.6028037 0.5607477 0.6168224
   permut.29 permut.30 permut.31 permut.32 permut.33 permut.34 permut.35
1  0.5700935 0.5373832 0.5607477 0.5514019 0.5420561 0.5607477 0.5560748
2  0.5700935 0.5373832 0.5514019 0.5373832 0.5093458 0.5467290 0.5467290
3  0.5373832 0.5327103 0.5467290 0.5467290 0.5093458 0.5373832 0.5420561
4  0.5560748 0.5373832 0.5280374 0.5514019 0.5140187 0.5327103 0.5467290
5  0.5654206 0.5233645 0.5467290 0.5607477 0.5186916 0.5280374 0.5467290
6  0.5560748 0.5280374 0.5560748 0.5327103 0.5233645 0.5514019 0.5560748
7  0.5654206 0.5280374 0.5607477 0.5327103 0.5327103 0.5607477 0.5654206
8  0.5654206 0.5420561 0.5607477 0.5327103 0.5420561 0.5794393 0.5700935
9  0.5794393 0.5467290 0.5560748 0.5420561 0.5420561 0.5934579 0.5887850
10 0.5887850 0.5747664 0.5607477 0.5420561 0.5514019 0.5981308 0.6028037
11 0.5887850 0.5794393 0.5654206 0.5420561 0.5467290 0.5981308 0.6074766
12 0.5934579 0.5934579 0.5794393 0.5420561 0.5700935 0.6214953 0.6495327
13 0.6028037 0.6121495 0.5934579 0.5607477 0.5700935 0.6168224 0.6448598
14 0.6028037 0.5934579 0.5794393 0.5607477 0.5841121 0.6355140 0.6682243
15 0.6028037 0.6168224 0.5934579 0.5654206 0.6308411 0.6308411 0.6822430
   permut.36 permut.37 permut.38 permut.39 permut.40 permut.41 permut.42
1  0.5327103 0.5420561 0.5467290 0.5373832 0.5280374 0.5000000 0.5700935
2  0.5046729 0.5186916 0.5233645 0.5373832 0.5140187 0.4859813 0.5700935
3  0.5140187 0.4766355 0.5514019 0.5373832 0.5140187 0.4906542 0.5700935
4  0.5233645 0.4766355 0.5747664 0.5327103 0.5140187 0.4953271 0.5794393
5  0.5186916 0.4906542 0.5700935 0.5327103 0.5233645 0.5000000 0.6074766
6  0.5280374 0.5000000 0.5700935 0.5373832 0.5327103 0.5046729 0.6355140
7  0.5186916 0.5093458 0.5700935 0.5514019 0.5327103 0.5140187 0.6214953
8  0.5093458 0.5093458 0.5841121 0.5420561 0.5280374 0.5467290 0.6074766
9  0.5140187 0.5327103 0.5794393 0.5607477 0.5373832 0.5420561 0.6168224
10 0.5280374 0.5420561 0.6028037 0.5700935 0.5467290 0.5467290 0.6542056
11 0.5373832 0.5654206 0.6074766 0.5794393 0.5700935 0.5373832 0.6635514
12 0.5233645 0.5560748 0.6168224 0.5981308 0.5747664 0.5373832 0.6775701
13 0.5514019 0.5747664 0.6308411 0.6168224 0.5700935 0.5607477 0.7009346
14 0.5887850 0.6028037 0.6448598 0.6261682 0.6028037 0.5747664 0.7009346
15 0.5981308 0.5841121 0.6822430 0.6869159 0.5981308 0.5934579 0.7242991
   permut.43 permut.44 permut.45 permut.46 permut.47 permut.48 permut.49
1  0.5654206 0.5373832 0.5186916 0.5467290 0.5420561 0.5560748 0.5467290
2  0.5373832 0.5327103 0.5327103 0.5420561 0.5467290 0.5233645 0.5373832
3  0.5560748 0.5327103 0.5327103 0.5280374 0.5514019 0.5093458 0.5327103
4  0.5700935 0.5327103 0.5140187 0.5280374 0.5233645 0.4766355 0.5327103
5  0.5794393 0.5280374 0.5233645 0.5327103 0.5233645 0.4719626 0.5467290
6  0.5841121 0.5514019 0.5373832 0.5233645 0.5280374 0.4813084 0.5514019
7  0.5887850 0.5654206 0.5467290 0.5327103 0.5280374 0.4906542 0.5514019
8  0.5981308 0.5700935 0.5560748 0.5467290 0.5373832 0.4953271 0.5607477
9  0.6121495 0.5560748 0.5560748 0.5560748 0.5327103 0.4953271 0.5467290
10 0.6308411 0.5560748 0.5514019 0.5747664 0.5467290 0.5046729 0.5560748
11 0.6355140 0.5747664 0.5373832 0.5841121 0.5700935 0.5093458 0.5654206
12 0.6542056 0.5794393 0.5327103 0.5700935 0.5794393 0.5233645 0.5467290
13 0.6682243 0.5794393 0.5373832 0.5841121 0.5934579 0.5233645 0.5700935
14 0.6682243 0.5981308 0.5467290 0.6121495 0.5981308 0.5514019 0.5794393
15 0.6962617 0.5934579 0.5560748 0.6355140 0.6028037 0.5700935 0.5934579
   permut.50 permut.51 permut.52 permut.53 permut.54 permut.55 permut.56
1  0.5420561 0.5373832 0.5467290 0.5373832 0.5327103 0.5327103 0.5560748
2  0.5420561 0.5186916 0.5093458 0.5514019 0.5373832 0.4953271 0.5373832
3  0.5140187 0.5186916 0.5093458 0.5420561 0.5467290 0.4953271 0.5140187
4  0.4859813 0.5373832 0.5140187 0.5186916 0.5560748 0.4953271 0.5000000
5  0.4766355 0.5373832 0.5186916 0.5046729 0.5607477 0.4953271 0.4813084
6  0.4766355 0.5373832 0.5046729 0.5046729 0.5607477 0.5046729 0.4766355
7  0.4906542 0.5327103 0.5093458 0.5093458 0.5654206 0.5093458 0.4672897
8  0.4953271 0.5467290 0.5093458 0.5000000 0.5747664 0.5233645 0.4672897
9  0.5140187 0.5327103 0.5140187 0.4953271 0.5887850 0.5280374 0.4906542
10 0.5186916 0.5373832 0.5186916 0.5000000 0.5654206 0.5140187 0.5140187
11 0.5186916 0.5373832 0.5186916 0.5000000 0.5654206 0.5280374 0.5280374
12 0.5186916 0.5420561 0.5327103 0.4953271 0.5467290 0.5327103 0.5467290
13 0.5467290 0.5467290 0.5420561 0.5233645 0.5654206 0.5327103 0.5373832
14 0.5420561 0.5514019 0.5514019 0.5514019 0.5747664 0.5560748 0.5514019
15 0.5607477 0.5607477 0.5654206 0.5700935 0.5981308 0.5841121 0.5327103
   permut.57 permut.58 permut.59 permut.60 permut.61 permut.62 permut.63
1  0.5467290 0.5373832 0.5093458 0.5467290 0.5420561 0.5093458 0.5467290
2  0.5233645 0.5327103 0.5140187 0.5186916 0.5420561 0.5046729 0.5327103
3  0.5467290 0.5373832 0.5280374 0.5280374 0.5233645 0.5093458 0.5514019
4  0.5607477 0.5514019 0.5420561 0.5373832 0.5420561 0.5140187 0.5560748
5  0.5280374 0.5607477 0.5327103 0.5654206 0.5373832 0.5093458 0.5654206
6  0.5373832 0.5981308 0.5514019 0.5654206 0.5327103 0.4813084 0.5747664
7  0.5607477 0.5700935 0.5654206 0.5887850 0.5373832 0.4766355 0.5794393
8  0.5700935 0.5794393 0.5607477 0.5841121 0.5467290 0.4719626 0.5981308
9  0.5514019 0.5607477 0.5700935 0.5887850 0.5607477 0.4626168 0.5934579
10 0.5467290 0.5654206 0.5654206 0.5700935 0.5794393 0.4579439 0.5887850
11 0.5467290 0.5700935 0.5607477 0.5747664 0.5700935 0.4626168 0.5841121
12 0.5514019 0.5934579 0.5560748 0.5794393 0.5794393 0.4672897 0.5841121
13 0.5560748 0.6074766 0.5841121 0.5887850 0.5934579 0.4719626 0.5887850
14 0.5514019 0.6028037 0.6121495 0.6074766 0.5981308 0.5000000 0.6028037
15 0.5841121 0.6214953 0.6028037 0.6168224 0.6448598 0.5280374 0.6261682
   permut.64 permut.65 permut.66 permut.67 permut.68 permut.69 permut.70
1  0.5700935 0.5186916 0.5280374 0.5186916 0.5373832 0.5327103 0.5046729
2  0.5700935 0.5327103 0.5280374 0.4953271 0.5327103 0.5186916 0.5000000
3  0.5700935 0.5373832 0.5514019 0.4953271 0.5373832 0.5233645 0.5046729
4  0.5747664 0.5280374 0.5607477 0.4719626 0.5467290 0.5233645 0.5140187
5  0.5700935 0.5280374 0.5467290 0.4859813 0.5560748 0.5140187 0.5186916
6  0.5700935 0.5420561 0.5514019 0.5000000 0.5747664 0.5186916 0.5280374
7  0.5841121 0.5514019 0.5607477 0.5000000 0.5934579 0.5327103 0.5327103
8  0.5607477 0.5607477 0.5654206 0.5046729 0.5934579 0.5514019 0.5373832
9  0.5700935 0.5607477 0.5841121 0.5186916 0.5981308 0.5654206 0.5467290
10 0.5981308 0.5607477 0.5934579 0.5327103 0.6121495 0.5747664 0.5747664
11 0.6121495 0.5654206 0.5934579 0.5467290 0.5981308 0.5794393 0.5233645
12 0.6074766 0.5700935 0.6028037 0.5560748 0.6074766 0.5981308 0.5607477
13 0.6028037 0.5887850 0.5794393 0.5607477 0.6214953 0.6168224 0.5654206
14 0.6028037 0.6074766 0.6028037 0.5841121 0.6401869 0.6168224 0.5747664
15 0.6121495 0.6261682 0.6121495 0.5841121 0.6588785 0.6495327 0.5747664
   permut.71 permut.72 permut.73 permut.74 permut.75 permut.76 permut.77
1  0.5560748 0.5514019 0.5373832 0.5700935 0.5560748 0.5046729 0.5373832
2  0.5514019 0.4953271 0.5186916 0.5700935 0.5560748 0.5186916 0.5373832
3  0.5467290 0.4953271 0.5186916 0.5794393 0.5560748 0.5280374 0.5186916
4  0.5514019 0.4906542 0.5233645 0.5934579 0.5467290 0.5327103 0.5000000
5  0.5607477 0.5000000 0.5280374 0.6261682 0.5700935 0.5467290 0.4906542
6  0.5700935 0.5186916 0.5280374 0.6028037 0.5887850 0.5514019 0.5046729
7  0.5747664 0.5186916 0.5280374 0.5747664 0.6074766 0.5467290 0.5046729
8  0.5747664 0.5373832 0.5467290 0.6074766 0.5981308 0.5560748 0.5046729
9  0.5887850 0.5514019 0.5654206 0.6214953 0.5981308 0.5607477 0.5000000
10 0.5981308 0.5560748 0.5514019 0.6401869 0.6168224 0.5700935 0.5140187
11 0.6168224 0.5514019 0.5607477 0.6261682 0.6261682 0.5887850 0.5280374
12 0.6168224 0.5327103 0.5467290 0.6401869 0.6168224 0.5934579 0.5420561
13 0.6308411 0.5280374 0.5607477 0.6448598 0.6168224 0.5841121 0.5607477
14 0.6355140 0.5327103 0.5747664 0.6588785 0.6121495 0.5887850 0.5654206
15 0.6588785 0.5654206 0.5700935 0.6915888 0.6214953 0.6121495 0.5794393
   permut.78 permut.79 permut.80 permut.81 permut.82 permut.83 permut.84
1  0.5420561 0.5607477 0.5373832 0.5233645 0.5420561 0.5420561 0.5000000
2  0.5467290 0.5560748 0.5093458 0.5233645 0.5140187 0.5373832 0.4906542
3  0.5140187 0.5467290 0.5186916 0.5140187 0.5140187 0.5327103 0.4906542
4  0.4953271 0.5420561 0.5280374 0.5140187 0.5186916 0.5467290 0.4953271
5  0.4906542 0.5560748 0.5280374 0.5140187 0.5233645 0.5607477 0.5000000
6  0.5000000 0.5654206 0.5327103 0.5186916 0.5186916 0.5607477 0.4906542
7  0.5093458 0.5794393 0.5373832 0.5233645 0.5280374 0.5794393 0.4953271
8  0.5140187 0.5841121 0.5420561 0.5373832 0.5467290 0.5887850 0.4953271
9  0.5280374 0.5981308 0.5654206 0.5514019 0.5607477 0.5841121 0.4906542
10 0.5373832 0.6074766 0.5514019 0.5607477 0.5747664 0.5747664 0.4953271
11 0.5467290 0.6168224 0.5607477 0.5514019 0.5794393 0.5747664 0.4906542
12 0.5560748 0.6261682 0.5747664 0.5373832 0.5700935 0.5841121 0.5046729
13 0.5747664 0.6168224 0.5887850 0.5514019 0.5794393 0.5981308 0.5046729
14 0.5514019 0.6308411 0.5747664 0.5607477 0.6168224 0.6168224 0.5140187
15 0.5607477 0.6308411 0.5887850 0.6028037 0.6355140 0.6448598 0.5280374
   permut.85 permut.86 permut.87 permut.88 permut.89 permut.90 permut.91
1  0.5607477 0.5607477 0.5560748 0.5233645 0.5233645 0.5467290 0.5467290
2  0.5467290 0.5514019 0.5514019 0.5186916 0.5186916 0.5420561 0.5186916
3  0.5560748 0.5560748 0.5373832 0.5140187 0.5233645 0.5373832 0.5140187
4  0.5654206 0.5747664 0.5233645 0.5140187 0.5186916 0.5514019 0.5233645
5  0.5654206 0.5794393 0.5233645 0.5280374 0.5280374 0.5420561 0.5327103
6  0.5747664 0.5700935 0.5373832 0.5233645 0.5373832 0.5373832 0.5280374
7  0.5747664 0.5747664 0.5327103 0.5280374 0.5373832 0.5373832 0.5280374
8  0.5794393 0.5794393 0.5373832 0.5327103 0.5280374 0.5467290 0.5420561
9  0.5934579 0.5887850 0.5420561 0.5327103 0.5280374 0.5607477 0.5514019
10 0.6028037 0.5981308 0.5654206 0.5420561 0.5373832 0.5747664 0.5280374
11 0.6074766 0.6214953 0.5747664 0.5514019 0.5373832 0.5747664 0.5233645
12 0.6308411 0.6214953 0.5841121 0.5747664 0.5514019 0.5841121 0.5233645
13 0.6355140 0.6121495 0.6074766 0.5747664 0.5700935 0.5934579 0.5607477
14 0.6542056 0.6261682 0.6168224 0.5794393 0.5794393 0.6168224 0.5607477
15 0.6915888 0.6308411 0.6355140 0.6074766 0.6168224 0.6261682 0.5981308
   permut.92 permut.93 permut.94 permut.95 permut.96 permut.97 permut.98
1  0.5420561 0.5607477 0.5560748 0.5467290 0.5233645 0.5420561 0.5233645
2  0.5373832 0.5373832 0.5514019 0.5420561 0.4953271 0.5467290 0.5093458
3  0.5467290 0.5420561 0.5607477 0.5420561 0.4719626 0.5654206 0.5186916
4  0.5654206 0.5560748 0.5560748 0.5420561 0.4719626 0.5514019 0.5140187
5  0.5560748 0.5514019 0.5560748 0.5420561 0.4672897 0.5560748 0.5233645
6  0.5373832 0.5514019 0.5233645 0.5467290 0.4766355 0.5654206 0.5233645
7  0.5420561 0.5560748 0.5327103 0.5420561 0.4766355 0.5607477 0.5093458
8  0.5514019 0.5654206 0.5514019 0.5373832 0.4672897 0.5514019 0.5046729
9  0.5654206 0.5654206 0.5514019 0.5467290 0.4813084 0.5654206 0.5140187
10 0.5654206 0.5887850 0.5654206 0.5560748 0.4906542 0.5794393 0.5327103
11 0.5700935 0.5887850 0.5794393 0.5700935 0.4906542 0.5841121 0.5467290
12 0.5654206 0.5934579 0.5887850 0.5887850 0.4953271 0.5981308 0.5654206
13 0.5700935 0.5887850 0.5887850 0.5747664 0.5093458 0.6168224 0.5841121
14 0.5794393 0.5934579 0.5654206 0.5841121 0.5233645 0.6308411 0.5841121
15 0.5841121 0.6074766 0.5934579 0.5747664 0.5420561 0.6448598 0.6261682
   permut.99 permut.100  err.mean     err.sd   err.sterr
1  0.5280374  0.5560748 0.5384112 0.01695382 0.001695382
2  0.5140187  0.5514019 0.5276636 0.02095770 0.002095770
3  0.5186916  0.5607477 0.5274299 0.02336595 0.002336595
4  0.5280374  0.5467290 0.5289720 0.02739276 0.002739276
5  0.5186916  0.5467290 0.5312150 0.03007833 0.003007833
6  0.5000000  0.5607477 0.5346729 0.03151293 0.003151293
7  0.5093458  0.5747664 0.5375234 0.03228920 0.003228920
8  0.5140187  0.5607477 0.5419159 0.03353569 0.003353569
9  0.5233645  0.5747664 0.5470561 0.03390071 0.003390071
10 0.5327103  0.5887850 0.5554206 0.03519522 0.003519522
11 0.5420561  0.5934579 0.5604206 0.03535302 0.003535302
12 0.5607477  0.6028037 0.5668692 0.03853768 0.003853768
13 0.5700935  0.6355140 0.5764486 0.03776193 0.003776193
14 0.5841121  0.6401869 0.5873364 0.03647954 0.003647954
15 0.5747664  0.6635514 0.6037383 0.03946126 0.003946126

$permut.stepwise.lda$best.p
[1] 5

$permut.stepwise.lda$best.error
[1] 0.546729

$permut.stepwise.lda$best.pda
$permut.stepwise.lda$best.pda$class
  [1] MET CTL MET CTL CTL MET CTL CTL MET MET MET CTL MET MET MET MET MET MET
 [19] CTL MET MET CTL CTL CTL CTL MET CTL CTL MET CTL MET CTL MET MET CTL CTL
 [37] CTL CTL MET MET CTL MET MET MET MET MET MET MET CTL CTL CTL MET CTL MET
 [55] PHO PHO MET MET MET MET MET MET MET MET CTL MET MET CTL MET CTL MET CTL
 [73] CTL CTL MET MET CTL MET CTL CTL MET MET MET MET MET CTL MET CTL MET CTL
 [91] MET MET CTL MET CTL MET MET MET MET MET MET MET MET MET MET MET MET CTL
[109] CTL MET MET MET MET MET MET MET MET MET PHO MET CTL CTL CTL MET MET MET
[127] MET MET MET MET MET MET MET PHO MET MET MET CTL MET CTL CTL MET MET MET
[145] MET MET MET PHO CTL MET MET MET MET MET MET MET MET CTL CTL MET MET CTL
[163] MET CTL MET MET CTL PHO CTL CTL MET MET CTL CTL CTL MET MET MET CTL CTL
[181] CTL CTL MET MET MET MET CTL CTL MET MET MET MET CTL MET MET MET CTL MET
[199] CTL MET MET MET CTL MET MET MET MET MET MET CTL MET MET MET MET
Levels: CTL MET PHO

$permut.stepwise.lda$best.pda$posterior
                 CTL       MET        PHO
YAL002W   0.37731490 0.4802284 0.14245671
YAL038W   0.43541691 0.4266840 0.13789911
YAR064W   0.25155141 0.5383947 0.21005388
YAR069C   0.42045602 0.3411065 0.23843748
YAR070C   0.47116390 0.3401180 0.18871807
YAR071W   0.35081160 0.4951873 0.15400110
YBL005W   0.51026107 0.3970154 0.09272349
YBL030C   0.46086300 0.4245362 0.11460081
YBR006W   0.28362443 0.5212167 0.19515884
YBR018C   0.42760122 0.4707556 0.10164322
YBR020W   0.37422113 0.5070074 0.11877149
YBR093C   0.45420521 0.3826022 0.16319256
YBR115C   0.38599313 0.4706024 0.14340443
YBR184W   0.36164022 0.4928040 0.14555582
YBR213W   0.35207609 0.3837808 0.26414308
YBR222C   0.41332148 0.4149421 0.17173644
YBR296C   0.42428453 0.4261556 0.14955983
YCL018W   0.41125226 0.4635827 0.12516500
YCR047C   0.47752150 0.2994701 0.22300838
YCR098C   0.35995633 0.5084099 0.13163378
YDL131W   0.42908621 0.4314416 0.13947215
YDL182W   0.53441565 0.3838098 0.08177454
YDL205C   0.53799705 0.3776176 0.08438531
YDL210W   0.41473483 0.3737329 0.21153231
YDR011W   0.45762940 0.3757525 0.16661809
YDR023W   0.37489249 0.4440649 0.18104261
YDR041W   0.50095076 0.3572430 0.14180622
YDR044W   0.55784832 0.2663059 0.17584575
YDR054C   0.37617942 0.4554257 0.16839485
YDR055W   0.41463489 0.4124312 0.17293395
YDR169C   0.31894646 0.4603500 0.22070354
YDR234W   0.47217962 0.3975927 0.13022765
YDR253C   0.23513342 0.5174393 0.24742732
YDR254W   0.18254716 0.5956789 0.22177391
YDR281C   0.48967214 0.3369503 0.17337758
YDR285W   0.44806560 0.3717792 0.18015518
YDR310C   0.46920273 0.3235896 0.20720765
YDR311W   0.50409098 0.3306248 0.16528425
YDR381C-A 0.23137816 0.4553786 0.31324322
YDR382W   0.22112305 0.5045715 0.27430543
YDR406W   0.52120592 0.3599083 0.11888583
YDR481C   0.24125896 0.6156260 0.14311504
YDR502C   0.17382629 0.5142234 0.31195027
YDR508C   0.38252449 0.3916435 0.22583203
YDR510W   0.30664080 0.4912980 0.20206115
YEL017C-A 0.42836034 0.4689465 0.10269315
YEL017W   0.42761377 0.4655136 0.10687258
YEL021W   0.42338582 0.4589232 0.11769100
YEL039C   0.50532829 0.3810200 0.11365174
YEL044W   0.45357023 0.3970312 0.14939856
YEL046C   0.49475955 0.2970546 0.20818581
YER026C   0.36601156 0.4524682 0.18152020
YER086W   0.49796491 0.3665230 0.13551207
YER091C-A 0.32044452 0.4315201 0.24803536
YER091C   0.27729920 0.3319981 0.39070266
YER092W   0.23216484 0.3788867 0.38894846
YER125W   0.18208777 0.6413189 0.17659334
YER179W   0.37239867 0.4883676 0.13923369
YFL023W   0.32856936 0.3841704 0.28726028
YFL024C   0.32856936 0.3841704 0.28726028
YFL031W   0.29862711 0.4444611 0.25691179
YFL032W   0.34517082 0.4386399 0.21618926
YFL033C   0.29892360 0.4573422 0.24373416
YFR030W   0.24896629 0.4969483 0.25408536
YGL009C   0.49530578 0.3364792 0.16821499
YGL055W   0.34004903 0.3615036 0.29844733
YGL056C   0.34431452 0.4059526 0.24973288
YGL073W   0.52439183 0.3512717 0.12433648
YGL125W   0.36719671 0.4804054 0.15239794
YGL213C   0.52806515 0.3850812 0.08685361
YGR019W   0.30045329 0.4863576 0.21318909
YGR044C   0.42202799 0.3568493 0.22112269
YGR088W   0.51279315 0.3927267 0.09448015
YGR121C   0.55056462 0.3611688 0.08826655
YGR154C   0.16420217 0.5381010 0.29769678
YGR155W   0.17857956 0.6296022 0.19181820
YGR157W   0.43444183 0.4078689 0.15768929
YGR204W   0.26547189 0.5117789 0.22274925
YGR233C   0.39991980 0.3757867 0.22429355
YGR281W   0.38841058 0.2299551 0.38163434
YHL022C   0.42079021 0.4489646 0.13024517
YHL036W   0.26744472 0.3856456 0.34690966
YHR001W-A 0.26419418 0.4989658 0.23684002
YHR007C   0.39623019 0.4349448 0.16882498
YHR008C   0.44668681 0.4502693 0.10304391
YHR014W   0.42195856 0.3661309 0.21191059
YHR037W   0.40784025 0.4676619 0.12449782
YHR046C   0.37644300 0.2666902 0.35686679
YHR082C   0.31974662 0.4915133 0.18874013
YHR083W   0.39735340 0.3390678 0.26357884
YHR089C   0.32480809 0.5034263 0.17176565
YHR107C   0.39769363 0.4784489 0.12385742
YHR136C   0.36535766 0.3462628 0.28837954
YHR137W   0.34739051 0.4106693 0.24194023
YHR153C   0.43129128 0.4090861 0.15962264
YHR168W   0.36186447 0.4733411 0.16479440
YHR215W   0.35081160 0.4951873 0.15400110
YIL015W   0.32157812 0.5132685 0.16515338
YIL046W   0.27604100 0.4781235 0.24583552
YIL072W   0.33683355 0.4271397 0.23602673
YIL092W   0.38084315 0.4279874 0.19116944
YIL106W   0.32717064 0.4076504 0.26517898
YIL107C   0.25770036 0.4884958 0.25380387
YIL126W   0.30889675 0.4166976 0.27440562
YIL127C   0.26673248 0.4236127 0.30965480
YIR017C   0.19604183 0.5509114 0.25304672
YIR034C   0.40915395 0.4503882 0.14045785
YJL012C   0.46088634 0.4146002 0.12451342
YJL106W   0.44295387 0.4337466 0.12329957
YJL117W   0.25278860 0.5760008 0.17121056
YJL119C   0.31017216 0.4959969 0.19383097
YJL129C   0.35226687 0.4838310 0.16390214
YJL153C   0.34387276 0.4392059 0.21692133
YJL167W   0.32688874 0.4310032 0.24210811
YJL168C   0.28902047 0.4455946 0.26538492
YJL186W   0.33346384 0.5061265 0.16040963
YJL187C   0.32624732 0.5565899 0.11716278
YJL219W   0.41824983 0.4666257 0.11512445
YJR010W   0.05510474 0.3275186 0.61737667
YJR048W   0.41904248 0.4374438 0.14351369
YJR073C   0.50938773 0.3314221 0.15919017
YJR094C   0.58748881 0.2878252 0.12468600
YJR095W   0.35627478 0.3001938 0.34353139
YJR113C   0.24268415 0.5088690 0.24844680
YJR115W   0.25822325 0.5321479 0.20962881
YJR137C   0.32684713 0.4759478 0.19720508
YJR138W   0.29290608 0.4535971 0.25349682
YJR139C   0.31134307 0.4087659 0.27989106
YJR152W   0.37341572 0.4515491 0.17503520
YKL001C   0.25804985 0.5575664 0.18438377
YKL007W   0.33943450 0.4925918 0.16797373
YKL008C   0.33961956 0.4790917 0.18128874
YKL015W   0.30449794 0.3648755 0.33062657
YKL016C   0.34429384 0.2746054 0.38110080
YKL088W   0.25180122 0.5117222 0.23647659
YKL128C   0.33269505 0.4387076 0.22859739
YKL139W   0.39143377 0.4066264 0.20193984
YKL182W   0.48307102 0.3770583 0.13987067
YKL192C   0.33292821 0.4198532 0.24721855
YKL216W   0.50943432 0.3772205 0.11334523
YKR039W   0.62531164 0.1936781 0.18101029
YKR048C   0.42065411 0.4412184 0.13812747
YKR050W   0.42065411 0.4412184 0.13812747
YKR068C   0.24617185 0.5002084 0.25361974
YKR069W   0.24617185 0.5002084 0.25361974
YLL008W   0.29298159 0.4848502 0.22216821
YLL010C   0.37413527 0.3789803 0.24688441
YLR050C   0.36616756 0.2368016 0.39703087
YLR081W   0.38486803 0.3587883 0.25634369
YLR092W   0.28945249 0.3779592 0.33258834
YLR142W   0.39169225 0.4299968 0.17831091
YLR162W   0.39276106 0.4145940 0.19264494
YLR180W   0.22592705 0.5812106 0.19286237
YLR263W   0.35257838 0.4378861 0.20953552
YLR278C   0.27514851 0.5334326 0.19141891
YLR283W   0.32391279 0.4009540 0.27513320
YLR303W   0.14554853 0.5480237 0.30642772
YLR329W   0.50785133 0.3643934 0.12775532
YLR420W   0.46378149 0.4160265 0.12019202
YLR438W   0.42260949 0.4535752 0.12381526
YML018C   0.22863394 0.5554887 0.21587731
YML051W   0.45190274 0.4096676 0.13842971
YML054C   0.40278267 0.4641405 0.13307685
YML075C   0.57875305 0.2327923 0.18845462
YML121W   0.39885327 0.4082025 0.19294419
YML122C   0.35199010 0.5031748 0.14483512
YML123C   0.43484529 0.4302672 0.13488748
YMR061W   0.30687765 0.3045149 0.38860741
YMR108W   0.47004151 0.4126006 0.11735784
YMR133W   0.41482896 0.4137796 0.17139139
YMR216C   0.31143709 0.4811896 0.20737330
YMR217W   0.32373780 0.4688918 0.20737043
YMR253C   0.43705061 0.3156660 0.24728344
YMR255W   0.43823746 0.3301948 0.23156771
YMR271C   0.44360206 0.3599933 0.19640469
YMR301C   0.34976205 0.4265302 0.22370770
YNL052W   0.41396211 0.4374909 0.14854697
YNL104C   0.38474980 0.4444907 0.17075950
YNL142W   0.54856397 0.3120832 0.13935287
YNL210W   0.45713545 0.4280265 0.11483808
YNL231C   0.46678445 0.3743921 0.15882349
YNL241C   0.43756634 0.3831809 0.17925281
YNL259C   0.30862122 0.3930838 0.29829493
YNL260C   0.29466130 0.4809414 0.22439728
YNL277W   0.12833957 0.5632275 0.30843290
YNR001C   0.42949656 0.4407780 0.12972542
YNR050C   0.47976794 0.3701264 0.15010564
YOL006C   0.51278357 0.3803268 0.10688963
YOL100W   0.32770550 0.4311033 0.24119115
YOR054C   0.38353625 0.4049055 0.21155829
YOR065W   0.42485973 0.4567500 0.11839028
YOR120W   0.28844286 0.5636826 0.14787451
YOR153W   0.46279338 0.3911337 0.14607291
YOR162C   0.38013827 0.4422281 0.17763358
YOR163W   0.39825872 0.4578071 0.14393418
YOR299W   0.35125098 0.4620080 0.18674103
YOR328W   0.47983046 0.3879533 0.13221628
YOR351C   0.40215269 0.4928364 0.10501090
YOR375C   0.41664381 0.3575673 0.22578893
YOR377W   0.30978699 0.5378882 0.15232483
YOR378W   0.34296302 0.4167238 0.24031322
YPL093W   0.35453867 0.4421367 0.20332466
YPL111W   0.49975811 0.3834203 0.11682158
YPL189W   0.38590345 0.4375678 0.17652875
YPL204W   0.32145726 0.4769270 0.20161572
YPL206C   0.31106905 0.4561852 0.23274577
YPL231W   0.37674245 0.4780563 0.14520125
YPL250C   0.30561137 0.3974471 0.29694148
YPR065W   0.32856566 0.5081895 0.16324484
YPR138C   0.52934587 0.3710020 0.09965218
YPR145W   0.42560704 0.4575829 0.11681002
YPR167C   0.35359958 0.4153893 0.23101108
YPR199C   0.38147802 0.4467788 0.17174319
YPR201W   0.40913877 0.4266183 0.16424289

$permut.stepwise.lda$best.pda$call
lda(x = data.training, grouping = labels.training, CV = loo, 
    na.action = na.omit)

$permut.stepwise.lda$best.pda$training.label
  [1] PHO MET MET PHO CTL MET MET PHO MET MET CTL CTL CTL MET MET CTL MET CTL
 [19] MET MET CTL PHO MET CTL PHO MET PHO CTL MET PHO MET PHO MET CTL CTL CTL
 [37] MET CTL CTL CTL MET CTL PHO MET MET PHO CTL PHO CTL MET CTL CTL MET MET
 [55] MET CTL PHO MET MET MET MET MET PHO CTL MET CTL MET MET MET MET PHO CTL
 [73] MET CTL CTL PHO PHO CTL PHO CTL MET MET CTL MET PHO CTL CTL MET CTL PHO
 [91] PHO CTL CTL CTL CTL MET MET CTL MET MET CTL PHO PHO MET MET MET MET CTL
[109] CTL CTL CTL MET PHO PHO MET MET PHO CTL MET CTL MET MET CTL CTL PHO CTL
[127] CTL PHO MET PHO PHO MET MET PHO CTL MET CTL CTL MET MET CTL CTL CTL MET
[145] MET CTL MET CTL PHO MET CTL MET MET MET MET MET MET CTL MET MET CTL CTL
[163] CTL CTL MET CTL CTL MET MET PHO CTL MET MET PHO PHO PHO PHO MET CTL CTL
[181] MET MET MET MET PHO MET PHO CTL CTL PHO CTL CTL CTL MET CTL MET MET CTL
[199] CTL MET CTL MET CTL CTL PHO CTL PHO MET MET MET MET PHO CTL MET
Levels: CTL MET PHO

$permut.stepwise.lda$best.pda$pda.method
[1] "lda"

$permut.stepwise.lda$best.pda$loo
[1] TRUE

$permut.stepwise.lda$best.pda$validation
[1] "LOO"

$permut.stepwise.lda$best.pda$confusion
      true
object CTL MET PHO
   CTL  30  23  15
   MET  48  66  26
   PHO   2   3   1
attr(,"error")
[1] 0.546729



$permut.pc.stepwise.lda
$permut.pc.stepwise.lda$confusion.table
        error CTL.CTL CTL.MET CTL.PHO MET.CTL MET.MET MET.PHO PHO.CTL PHO.MET
1   0.5280374      24      56       0      15      77       0       8      34
2   0.4906542      44      36       0      27      65       0      16      26
3   0.5186916      31      49       0      20      72       0      14      28
4   0.5186916      29      51       0      18      74       0      15      27
5   0.4906542      43      37       0      26      66       0      12      30
6   0.5700935       0      80       0       0      92       0       0      42
7   0.5233645      32      48       0      22      70       0      17      25
8   0.5280374      27      53       0      18      74       0       8      34
9   0.5046729      38      34       8      28      62       2      14      22
10  0.5514019      27      52       1      23      69       0      16      26
11  0.5233645      38      41       1      27      64       1      15      27
12  0.5700935      23      50       7      23      59      10      10      22
13  0.5046729      40      40       0      27      65       0      12      29
14  0.5093458      34      46       0      21      71       0      19      23
15  0.5467290      28      52       0      23      69       0      11      31
16  0.5186916      31      45       4      18      69       5      14      25
17  0.5373832      28      52       0      21      71       0      12      30
18  0.5093458      32      48       0      19      73       0      17      25
19  0.5560748      22      58       0      19      73       0       9      33
20  0.4813084      41      39       0      22      70       0      13      29
21  0.5000000      40      40       0      25      66       1      12      29
22  0.5046729      42      35       3      27      59       6      19      18
23  0.5186916      35      45       0      24      68       0      17      25
24  0.5000000      36      44       0      21      71       0      15      27
25  0.5280374      35      45       0      26      66       0      15      27
26  0.4906542      33      35      12      25      62       5       8      20
27  0.4906542      41      34       5      23      67       2      20      21
28  0.5327103      39      41       0      31      61       0      20      22
29  0.5093458      32      48       0      19      73       0       9      33
30  0.5093458      30      50       0      17      75       0      18      24
31  0.5093458      48      32       0      35      57       0      16      26
32  0.4906542      46      34       0      29      63       0      18      24
33  0.5327103      26      54       0      18      74       0      10      32
34  0.5327103      36      43       1      29      61       2      13      26
35  0.5233645      33      47       0      23      69       0      10      32
36  0.4859813      39      41       0      21      71       0      15      27
37  0.5186916      41      39       0      29      62       1      18      24
38  0.5373832      21      59       0      14      78       0       6      36
39  0.4953271      35      45       0      19      73       0      13      29
40  0.5327103      31      49       0      23      69       0      19      23
41  0.5000000      43      37       0      28      64       0      16      26
42  0.5186916      31      49       0      20      72       0      11      31
43  0.5093458      39      40       1      26      66       0      19      23
44  0.5186916      39      41       0      28      64       0      26      16
45  0.5327103      29      51       0      21      71       0      15      27
46  0.4953271      42      38       0      26      66       0      15      27
47  0.5046729      34      41       5      22      63       7      17      16
48  0.5420561      28      52       0      22      70       0      12      30
49  0.5280374      35      45       0      26      66       0       9      33
50  0.5000000      40      40       0      25      67       0      10      32
51  0.5186916      41      39       0      30      62       0      15      27
52  0.5093458      36      44       0      23      69       0      15      27
53  0.5467290      30      50       0      25      67       0      16      26
54  0.5093458      37      43       0      24      68       0      21      21
55  0.4859813      47      33       0      29      63       0      14      28
56  0.4906542      44      36       0      27      65       0      15      27
57  0.5373832      23      57       0      16      76       0       8      34
58  0.4906542      40      40       0      23      69       0      13      29
59  0.5186916      41      36       3      30      60       2      25      15
60  0.5046729      36      44       0      22      70       0      14      28
61  0.5233645      32      48       0      21      70       1      12      30
62  0.4859813      37      38       5      18      71       3      21      19
63  0.5046729      39      41       0      25      67       0      15      27
64  0.4766355      50      30       0      30      62       0      14      28
65  0.5093458      34      46       0      21      71       0      12      30
66  0.5046729      31      49       0      17      75       0      17      25
67  0.5233645      30      50       0      20      72       0      12      30
68  0.5093458      34      46       0      21      71       0      14      28
69  0.5046729      42      38       0      28      64       0      19      23
70  0.5700935       0      80       0       0      92       0       0      42
71  0.4953271      39      41       0      23      69       0      13      29
72  0.5607477      13      67       0      11      81       0       6      36
73  0.4953271      42      38       0      26      66       0      16      26
74  0.5093458      40      40       0      27      65       0      14      28
75  0.5327103      25      55       0      17      75       0       7      35
76  0.4766355      47      33       0      27      65       0      21      21
77  0.5233645      37      43       0      27      65       0      15      27
78  0.5140187      36      44       0      24      68       0      12      30
79  0.4953271      41      39       0      25      67       0      17      25
80  0.5233645      30      50       0      20      72       0      13      29
81  0.5093458      41      39       0      28      64       0      15      27
82  0.4859813      46      34       0      28      64       0      13      29
83  0.5140187      39      41       0      27      65       0      12      30
84  0.5327103      21      59       0      13      79       0       8      34
85  0.4906542      39      41       0      22      70       0      14      28
86  0.5000000      38      42       0      23      69       0      16      26
87  0.5420561      28      48       4      23      65       4      13      24
88  0.5233645      36      44       0      26      66       0      14      28
89  0.5373832      30      49       1      23      69       0       8      34
90  0.4859813      44      36       0      26      66       0      15      27
91  0.5280374      30      50       0      21      71       0      16      26
92  0.5373832      30      50       0      23      69       0      18      24
93  0.5186916      33      46       1      22      70       0      13      29
94  0.5233645      31      49       0      21      71       0      11      31
95  0.5000000      39      40       1      28      63       1      14      23
96  0.5373832      25      55       0      18      74       0       9      33
97  0.5373832      20      56       4      15      71       6       7      27
98  0.5093458      29      51       0      16      76       0       8      34
99  0.5046729      40      40       0      26      66       0      13      29
100 0.5373832      38      42       0      31      61       0      14      28
    PHO.PHO
1         0
2         0
3         0
4         0
5         0
6         0
7         0
8         0
9         6
10        0
11        0
12       10
13        1
14        0
15        0
16        3
17        0
18        0
19        0
20        0
21        1
22        5
23        0
24        0
25        0
26       14
27        1
28        0
29        0
30        0
31        0
32        0
33        0
34        3
35        0
36        0
37        0
38        0
39        0
40        0
41        0
42        0
43        0
44        0
45        0
46        0
47        9
48        0
49        0
50        0
51        0
52        0
53        0
54        0
55        0
56        0
57        0
58        0
59        2
60        0
61        0
62        2
63        0
64        0
65        0
66        0
67        0
68        0
69        0
70        0
71        0
72        0
73        0
74        0
75        0
76        0
77        0
78        0
79        0
80        0
81        0
82        0
83        0
84        0
85        0
86        0
87        5
88        0
89        0
90        0
91        0
92        0
93        0
94        0
95        5
96        0
97        8
98        0
99        0
100       0

$permut.pc.stepwise.lda$errors
    permut.1  permut.2  permut.3  permut.4  permut.5  permut.6  permut.7
1  0.5327103 0.5280374 0.5280374 0.5186916 0.5140187 0.5700935 0.5420561
2  0.5280374 0.5373832 0.5233645 0.5186916 0.5140187 0.5700935 0.5327103
3  0.5373832 0.5093458 0.5186916 0.5327103 0.4953271 0.5700935 0.5233645
4  0.5420561 0.4906542 0.5233645 0.5420561 0.5046729 0.5887850 0.5280374
5  0.5514019 0.5000000 0.5373832 0.5607477 0.5093458 0.6074766 0.5467290
6  0.5654206 0.5046729 0.5514019 0.5747664 0.5093458 0.6355140 0.5514019
7  0.5700935 0.5093458 0.5560748 0.5794393 0.5046729 0.5981308 0.5607477
8  0.5700935 0.5186916 0.5654206 0.6074766 0.4906542 0.5841121 0.5560748
9  0.5887850 0.5186916 0.5654206 0.6028037 0.4906542 0.5981308 0.5280374
10 0.5841121 0.5186916 0.5654206 0.6028037 0.5000000 0.5981308 0.5327103
11 0.5887850 0.5140187 0.5747664 0.6028037 0.5093458 0.6121495 0.5373832
12 0.6028037 0.5280374 0.5747664 0.6168224 0.5093458 0.6168224 0.5467290
13 0.6121495 0.5514019 0.5841121 0.6308411 0.5327103 0.6121495 0.5373832
14 0.6168224 0.5747664 0.5794393 0.6542056 0.5373832 0.6074766 0.5514019
15 0.6542056 0.5981308 0.6074766 0.7009346 0.5560748 0.6355140 0.5560748
    permut.8  permut.9 permut.10 permut.11 permut.12 permut.13 permut.14
1  0.5373832 0.5373832 0.5560748 0.5514019 0.5747664 0.5373832 0.5607477
2  0.5280374 0.5373832 0.5607477 0.5420561 0.5700935 0.5046729 0.5093458
3  0.5467290 0.5233645 0.5607477 0.5233645 0.5794393 0.5186916 0.5186916
4  0.5700935 0.5327103 0.5514019 0.5233645 0.5794393 0.5140187 0.5280374
5  0.5794393 0.5186916 0.5560748 0.5373832 0.5700935 0.5233645 0.5373832
6  0.5841121 0.5140187 0.5654206 0.5327103 0.5700935 0.5186916 0.5467290
7  0.5887850 0.5140187 0.5654206 0.5327103 0.5794393 0.5093458 0.5560748
8  0.5887850 0.5186916 0.5700935 0.5373832 0.5747664 0.5046729 0.5654206
9  0.6028037 0.5046729 0.5981308 0.5420561 0.5700935 0.5093458 0.5654206
10 0.6074766 0.5046729 0.6028037 0.5420561 0.5841121 0.5186916 0.5654206
11 0.6121495 0.5233645 0.5934579 0.5514019 0.5981308 0.5233645 0.5654206
12 0.6121495 0.5327103 0.6074766 0.5654206 0.6074766 0.5140187 0.5841121
13 0.6168224 0.5467290 0.6028037 0.5934579 0.6214953 0.5280374 0.6028037
14 0.6308411 0.5747664 0.6074766 0.5934579 0.6214953 0.5373832 0.5934579
15 0.6495327 0.5934579 0.6495327 0.6121495 0.6448598 0.5654206 0.5887850
   permut.15 permut.16 permut.17 permut.18 permut.19 permut.20 permut.21
1  0.5467290 0.5420561 0.5654206 0.5467290 0.5560748 0.4813084 0.5280374
2  0.5560748 0.5373832 0.5373832 0.5327103 0.5560748 0.4859813 0.5233645
3  0.5607477 0.5327103 0.5420561 0.5186916 0.5654206 0.4953271 0.5093458
4  0.5654206 0.5327103 0.5467290 0.5093458 0.5700935 0.5140187 0.5140187
5  0.5747664 0.5280374 0.5467290 0.5233645 0.5934579 0.5140187 0.5046729
6  0.5841121 0.5233645 0.5514019 0.5327103 0.6028037 0.5046729 0.5000000
7  0.5841121 0.5186916 0.5654206 0.5467290 0.6261682 0.5093458 0.5046729
8  0.5841121 0.5280374 0.5700935 0.5560748 0.6261682 0.5280374 0.5093458
9  0.5981308 0.5373832 0.5841121 0.5514019 0.6542056 0.5280374 0.5093458
10 0.6074766 0.5420561 0.5934579 0.5373832 0.6261682 0.5233645 0.5327103
11 0.6121495 0.5560748 0.5981308 0.5607477 0.6261682 0.5373832 0.5514019
12 0.6168224 0.5607477 0.6028037 0.5887850 0.6355140 0.5373832 0.5607477
13 0.6355140 0.5747664 0.6214953 0.5981308 0.6495327 0.5514019 0.5654206
14 0.6542056 0.5747664 0.6214953 0.6121495 0.6775701 0.5560748 0.5934579
15 0.6775701 0.5747664 0.6495327 0.6355140 0.6915888 0.5794393 0.5794393
   permut.22 permut.23 permut.24 permut.25 permut.26 permut.27 permut.28
1  0.5654206 0.5607477 0.5327103 0.5327103 0.5420561 0.5327103 0.5467290
2  0.5140187 0.5467290 0.5233645 0.5280374 0.5233645 0.5280374 0.5327103
3  0.5093458 0.5327103 0.5000000 0.5280374 0.5233645 0.5233645 0.5327103
4  0.5140187 0.5186916 0.5140187 0.5280374 0.5046729 0.5093458 0.5327103
5  0.5093458 0.5280374 0.5280374 0.5327103 0.5140187 0.4906542 0.5327103
6  0.5093458 0.5280374 0.5327103 0.5607477 0.5093458 0.4953271 0.5373832
7  0.5140187 0.5420561 0.5373832 0.5794393 0.5140187 0.4953271 0.5420561
8  0.5046729 0.5420561 0.5420561 0.5934579 0.5140187 0.5046729 0.5467290
9  0.5140187 0.5467290 0.5327103 0.6121495 0.5093458 0.4906542 0.5514019
10 0.5420561 0.5560748 0.5514019 0.6074766 0.5046729 0.5140187 0.5700935
11 0.5514019 0.5841121 0.5654206 0.6121495 0.4906542 0.5140187 0.5887850
12 0.5607477 0.6074766 0.5654206 0.5887850 0.5000000 0.5233645 0.5887850
13 0.5794393 0.6028037 0.5794393 0.5934579 0.5233645 0.5280374 0.5887850
14 0.5794393 0.6168224 0.5981308 0.6121495 0.5280374 0.5373832 0.6121495
15 0.6028037 0.6214953 0.6168224 0.6168224 0.5467290 0.5560748 0.6168224
   permut.29 permut.30 permut.31 permut.32 permut.33 permut.34 permut.35
1  0.5233645 0.5280374 0.5420561 0.5140187 0.5514019 0.5514019 0.5233645
2  0.5093458 0.5093458 0.5233645 0.5233645 0.5327103 0.5327103 0.5233645
3  0.5093458 0.5140187 0.5140187 0.5046729 0.5467290 0.5373832 0.5420561
4  0.5140187 0.5186916 0.5233645 0.5046729 0.5700935 0.5420561 0.5280374
5  0.5186916 0.5233645 0.5093458 0.4953271 0.5794393 0.5467290 0.5280374
6  0.5280374 0.5327103 0.5140187 0.4953271 0.5981308 0.5327103 0.5280374
7  0.5373832 0.5186916 0.5186916 0.4906542 0.6074766 0.5327103 0.5327103
8  0.5467290 0.5186916 0.5327103 0.5000000 0.6121495 0.5327103 0.5467290
9  0.5700935 0.5327103 0.5280374 0.5046729 0.6121495 0.5514019 0.5467290
10 0.5887850 0.5420561 0.5420561 0.5140187 0.6214953 0.5654206 0.5747664
11 0.6121495 0.5654206 0.5654206 0.5186916 0.6308411 0.5700935 0.5747664
12 0.5981308 0.5607477 0.5607477 0.5186916 0.6542056 0.5794393 0.5841121
13 0.6121495 0.5747664 0.5794393 0.5280374 0.6588785 0.5841121 0.5841121
14 0.6261682 0.5747664 0.5934579 0.5327103 0.6775701 0.5794393 0.5607477
15 0.6495327 0.6168224 0.6074766 0.5747664 0.7009346 0.5887850 0.5654206
   permut.36 permut.37 permut.38 permut.39 permut.40 permut.41 permut.42
1  0.5093458 0.5280374 0.5514019 0.5186916 0.5373832 0.5046729 0.5233645
2  0.4906542 0.5233645 0.5373832 0.4953271 0.5327103 0.5233645 0.5186916
3  0.5000000 0.5233645 0.5467290 0.5046729 0.5327103 0.5093458 0.5280374
4  0.4859813 0.5186916 0.5420561 0.5233645 0.5467290 0.5233645 0.5280374
5  0.4906542 0.5327103 0.5514019 0.5280374 0.5420561 0.5000000 0.5327103
6  0.4906542 0.5420561 0.5654206 0.5467290 0.5467290 0.5046729 0.5420561
7  0.4906542 0.5560748 0.5794393 0.5560748 0.5560748 0.5140187 0.5467290
8  0.4953271 0.5654206 0.5794393 0.5373832 0.5607477 0.5233645 0.5514019
9  0.5140187 0.5700935 0.5794393 0.5373832 0.5747664 0.5140187 0.5514019
10 0.5186916 0.5700935 0.5934579 0.5467290 0.5794393 0.5233645 0.5607477
11 0.5186916 0.5794393 0.5934579 0.5467290 0.5934579 0.5233645 0.5514019
12 0.5373832 0.5934579 0.6074766 0.5607477 0.6168224 0.5420561 0.5654206
13 0.5233645 0.6121495 0.6074766 0.5560748 0.6121495 0.5373832 0.5794393
14 0.5514019 0.6261682 0.6074766 0.5747664 0.6401869 0.5560748 0.5841121
15 0.5654206 0.6261682 0.6355140 0.5654206 0.6542056 0.5654206 0.5981308
   permut.43 permut.44 permut.45 permut.46 permut.47 permut.48 permut.49
1  0.5186916 0.5514019 0.5560748 0.5233645 0.5420561 0.5560748 0.5280374
2  0.5140187 0.5233645 0.5327103 0.5093458 0.5514019 0.5420561 0.5327103
3  0.5093458 0.5186916 0.5420561 0.5000000 0.5280374 0.5420561 0.5467290
4  0.5093458 0.5280374 0.5467290 0.4953271 0.5186916 0.5420561 0.5560748
5  0.5093458 0.5373832 0.5560748 0.5000000 0.5046729 0.5420561 0.5514019
6  0.5280374 0.5420561 0.5607477 0.5140187 0.5140187 0.5560748 0.5420561
7  0.5233645 0.5420561 0.5654206 0.5280374 0.5186916 0.5700935 0.5373832
8  0.5186916 0.5327103 0.5841121 0.5280374 0.5093458 0.5887850 0.5373832
9  0.5233645 0.5420561 0.5841121 0.5327103 0.5140187 0.5934579 0.5467290
10 0.5140187 0.5607477 0.6028037 0.5280374 0.5186916 0.6028037 0.5654206
11 0.5327103 0.5700935 0.6028037 0.5467290 0.5280374 0.6121495 0.5747664
12 0.5280374 0.5934579 0.6214953 0.5560748 0.5467290 0.6168224 0.5981308
13 0.5467290 0.6168224 0.6401869 0.5514019 0.5514019 0.6448598 0.5981308
14 0.5607477 0.6261682 0.6401869 0.5654206 0.5607477 0.6121495 0.6121495
15 0.5887850 0.6214953 0.6542056 0.5747664 0.5887850 0.6542056 0.6028037
   permut.50 permut.51 permut.52 permut.53 permut.54 permut.55 permut.56
1  0.5093458 0.5467290 0.5280374 0.5514019 0.5093458 0.5186916 0.5233645
2  0.5000000 0.5373832 0.5186916 0.5467290 0.5280374 0.5000000 0.5046729
3  0.5000000 0.5280374 0.5186916 0.5560748 0.5327103 0.4859813 0.5000000
4  0.5046729 0.5186916 0.5233645 0.5654206 0.5420561 0.4859813 0.4953271
5  0.5186916 0.5233645 0.5093458 0.5700935 0.5373832 0.5000000 0.4953271
6  0.5420561 0.5233645 0.5140187 0.5794393 0.5467290 0.5000000 0.4906542
7  0.5467290 0.5514019 0.5233645 0.5700935 0.5373832 0.5140187 0.5046729
8  0.5607477 0.5560748 0.5280374 0.5747664 0.5280374 0.5233645 0.5186916
9  0.5794393 0.5560748 0.5327103 0.5841121 0.5327103 0.5327103 0.5280374
10 0.5934579 0.5607477 0.5373832 0.5841121 0.5420561 0.5420561 0.5373832
11 0.5981308 0.5700935 0.5420561 0.5841121 0.5560748 0.5514019 0.5514019
12 0.5934579 0.5887850 0.5607477 0.5887850 0.5607477 0.5514019 0.5700935
13 0.5934579 0.6028037 0.5747664 0.5887850 0.5700935 0.5514019 0.5841121
14 0.5841121 0.6028037 0.5747664 0.5934579 0.5747664 0.5747664 0.5981308
15 0.6168224 0.6121495 0.6121495 0.6168224 0.6028037 0.5934579 0.6121495
   permut.57 permut.58 permut.59 permut.60 permut.61 permut.62 permut.63
1  0.5607477 0.5373832 0.5560748 0.5327103 0.5467290 0.5093458 0.5093458
2  0.5514019 0.5140187 0.5280374 0.5140187 0.5233645 0.4953271 0.5093458
3  0.5373832 0.5093458 0.5327103 0.5046729 0.5467290 0.4859813 0.5046729
4  0.5560748 0.4906542 0.5373832 0.5186916 0.5514019 0.4906542 0.5093458
5  0.5607477 0.5046729 0.5514019 0.5327103 0.5233645 0.4906542 0.5233645
6  0.5607477 0.5140187 0.5514019 0.5467290 0.5373832 0.4953271 0.5140187
7  0.5747664 0.5186916 0.5186916 0.5233645 0.5514019 0.5093458 0.5186916
8  0.5887850 0.5280374 0.5280374 0.5420561 0.5514019 0.5280374 0.5280374
9  0.5841121 0.5467290 0.5280374 0.5467290 0.5654206 0.5327103 0.5186916
10 0.5887850 0.5467290 0.5373832 0.5560748 0.5794393 0.5373832 0.5233645
11 0.5934579 0.5327103 0.5467290 0.5700935 0.5841121 0.5373832 0.5280374
12 0.6121495 0.5420561 0.5420561 0.5841121 0.5794393 0.5514019 0.5233645
13 0.6214953 0.5654206 0.5607477 0.5981308 0.5887850 0.5560748 0.5280374
14 0.6495327 0.5841121 0.5514019 0.6028037 0.6028037 0.5654206 0.5373832
15 0.6728972 0.5981308 0.5841121 0.6308411 0.6401869 0.5981308 0.5514019
   permut.64 permut.65 permut.66 permut.67 permut.68 permut.69 permut.70
1  0.5046729 0.5420561 0.5514019 0.5467290 0.5280374 0.5467290 0.5700935
2  0.4953271 0.5093458 0.5046729 0.5467290 0.5093458 0.5140187 0.5747664
3  0.4859813 0.5093458 0.5186916 0.5327103 0.5140187 0.5046729 0.5934579
4  0.4859813 0.5233645 0.5140187 0.5233645 0.5280374 0.5140187 0.5794393
5  0.4859813 0.5327103 0.5186916 0.5373832 0.5467290 0.5186916 0.5841121
6  0.4766355 0.5327103 0.5327103 0.5514019 0.5467290 0.5233645 0.5841121
7  0.4813084 0.5280374 0.5280374 0.5654206 0.5607477 0.5373832 0.5887850
8  0.4813084 0.5327103 0.5327103 0.5841121 0.5560748 0.5327103 0.5981308
9  0.4813084 0.5560748 0.5373832 0.5700935 0.5654206 0.5560748 0.5981308
10 0.4859813 0.5560748 0.5327103 0.5607477 0.5420561 0.5607477 0.6121495
11 0.4953271 0.5747664 0.5327103 0.5467290 0.5514019 0.5560748 0.6308411
12 0.5093458 0.5887850 0.5467290 0.5514019 0.5747664 0.5747664 0.6355140
13 0.5093458 0.5934579 0.5607477 0.5560748 0.5841121 0.5747664 0.6542056
14 0.5280374 0.6121495 0.5700935 0.5607477 0.5981308 0.5841121 0.6588785
15 0.5514019 0.6261682 0.5841121 0.5794393 0.6214953 0.5934579 0.6495327
   permut.71 permut.72 permut.73 permut.74 permut.75 permut.76 permut.77
1  0.5280374 0.5607477 0.5280374 0.5373832 0.5607477 0.5420561 0.5420561
2  0.5233645 0.5654206 0.4953271 0.5233645 0.5327103 0.5093458 0.5467290
3  0.5000000 0.5794393 0.5000000 0.5093458 0.5327103 0.5046729 0.5327103
4  0.4953271 0.5794393 0.5093458 0.5140187 0.5514019 0.5046729 0.5373832
5  0.4953271 0.5794393 0.5233645 0.5186916 0.5560748 0.4766355 0.5373832
6  0.5046729 0.5794393 0.5420561 0.5327103 0.5607477 0.4906542 0.5233645
7  0.5046729 0.5934579 0.5607477 0.5514019 0.5700935 0.4906542 0.5233645
8  0.5140187 0.5934579 0.5747664 0.5514019 0.5794393 0.4906542 0.5280374
9  0.5233645 0.5934579 0.5607477 0.5654206 0.5700935 0.5186916 0.5420561
10 0.5233645 0.6074766 0.5607477 0.5607477 0.5700935 0.5093458 0.5327103
11 0.5280374 0.6214953 0.5794393 0.5514019 0.5700935 0.5000000 0.5467290
12 0.5280374 0.6355140 0.5747664 0.5654206 0.5794393 0.5046729 0.5373832
13 0.5467290 0.6448598 0.5700935 0.5747664 0.5887850 0.5186916 0.5373832
14 0.5327103 0.6588785 0.5841121 0.5934579 0.5700935 0.5280374 0.5327103
15 0.5420561 0.6915888 0.5981308 0.6121495 0.5747664 0.5420561 0.5280374
   permut.78 permut.79 permut.80 permut.81 permut.82 permut.83 permut.84
1  0.5420561 0.5514019 0.5560748 0.5467290 0.5093458 0.5467290 0.5327103
2  0.5280374 0.5186916 0.5280374 0.5233645 0.4953271 0.5280374 0.5327103
3  0.5327103 0.5093458 0.5233645 0.5140187 0.4953271 0.5186916 0.5420561
4  0.5233645 0.5000000 0.5233645 0.5093458 0.4953271 0.5140187 0.5420561
5  0.5233645 0.4953271 0.5280374 0.5140187 0.4906542 0.5233645 0.5420561
6  0.5140187 0.5000000 0.5280374 0.5186916 0.4859813 0.5280374 0.5420561
7  0.5327103 0.5093458 0.5327103 0.5186916 0.4906542 0.5420561 0.5514019
8  0.5373832 0.5186916 0.5420561 0.5140187 0.5046729 0.5327103 0.5607477
9  0.5560748 0.5373832 0.5560748 0.5327103 0.5046729 0.5327103 0.5560748
10 0.5747664 0.5327103 0.5794393 0.5420561 0.5140187 0.5514019 0.5654206
11 0.5560748 0.5420561 0.5841121 0.5560748 0.5233645 0.5560748 0.5841121
12 0.5467290 0.5654206 0.5934579 0.5700935 0.5327103 0.5607477 0.5981308
13 0.5560748 0.5700935 0.5887850 0.5700935 0.5467290 0.5560748 0.6168224
14 0.5607477 0.5794393 0.6168224 0.6121495 0.5420561 0.5373832 0.6542056
15 0.5841121 0.6028037 0.6495327 0.6168224 0.5747664 0.5654206 0.6588785
   permut.85 permut.86 permut.87 permut.88 permut.89 permut.90 permut.91
1  0.5327103 0.5514019 0.5560748 0.5373832 0.5373832 0.5093458 0.5327103
2  0.5046729 0.5233645 0.5514019 0.5420561 0.5373832 0.4859813 0.5280374
3  0.4953271 0.5140187 0.5420561 0.5560748 0.5420561 0.4859813 0.5280374
4  0.4906542 0.5000000 0.5514019 0.5233645 0.5420561 0.4953271 0.5373832
5  0.5046729 0.5093458 0.5560748 0.5327103 0.5420561 0.5046729 0.5373832
6  0.5093458 0.5233645 0.5560748 0.5560748 0.5514019 0.5046729 0.5420561
7  0.5140187 0.5373832 0.5654206 0.5700935 0.5560748 0.5000000 0.5467290
8  0.5233645 0.5373832 0.5514019 0.5841121 0.5514019 0.5046729 0.5700935
9  0.5327103 0.5560748 0.5514019 0.6028037 0.5607477 0.5186916 0.5887850
10 0.5514019 0.5747664 0.5654206 0.5981308 0.5700935 0.5327103 0.5794393
11 0.5467290 0.5887850 0.5747664 0.5981308 0.5887850 0.5514019 0.5934579
12 0.5560748 0.5934579 0.5700935 0.5981308 0.5887850 0.5560748 0.5841121
13 0.5607477 0.6074766 0.5794393 0.6261682 0.5934579 0.5560748 0.5794393
14 0.5794393 0.6401869 0.5934579 0.6214953 0.6168224 0.5560748 0.5794393
15 0.5700935 0.6682243 0.6495327 0.6682243 0.6401869 0.5794393 0.6074766
   permut.92 permut.93 permut.94 permut.95 permut.96 permut.97 permut.98
1  0.5514019 0.5373832 0.5560748 0.5327103 0.5514019 0.5607477 0.5093458
2  0.5560748 0.5233645 0.5233645 0.5140187 0.5373832 0.5467290 0.5373832
3  0.5700935 0.5233645 0.5327103 0.5046729 0.5420561 0.5373832 0.5514019
4  0.5373832 0.5280374 0.5514019 0.5000000 0.5514019 0.5514019 0.5607477
5  0.5514019 0.5186916 0.5327103 0.5140187 0.5700935 0.5560748 0.5607477
6  0.5420561 0.5233645 0.5373832 0.5046729 0.5841121 0.5700935 0.5514019
7  0.5607477 0.5373832 0.5467290 0.5140187 0.6028037 0.5747664 0.5514019
8  0.5700935 0.5373832 0.5607477 0.5140187 0.6028037 0.6028037 0.5373832
9  0.5794393 0.5420561 0.5841121 0.5140187 0.6121495 0.6261682 0.5373832
10 0.5934579 0.5420561 0.6074766 0.5186916 0.6074766 0.6261682 0.5373832
11 0.6121495 0.5560748 0.6214953 0.5280374 0.6028037 0.6308411 0.5420561
12 0.6168224 0.5747664 0.6448598 0.5514019 0.6214953 0.6168224 0.5467290
13 0.6168224 0.5887850 0.6448598 0.5654206 0.6261682 0.6448598 0.5560748
14 0.6261682 0.6028037 0.6728972 0.5794393 0.6261682 0.6261682 0.5981308
15 0.6495327 0.6214953 0.6542056 0.5934579 0.6401869 0.6495327 0.6168224
   permut.99 permut.100  err.mean     err.sd   err.sterr
1  0.5280374  0.5514019 0.5379907 0.01760576 0.001760576
2  0.5233645  0.5373832 0.5263084 0.01860471 0.001860471
3  0.5280374  0.5420561 0.5252336 0.02204827 0.002204827
4  0.5186916  0.5373832 0.5269159 0.02366110 0.002366110
5  0.5140187  0.5514019 0.5306075 0.02582080 0.002582080
6  0.5046729  0.5607477 0.5355607 0.02865132 0.002865132
7  0.5093458  0.5654206 0.5410280 0.02974429 0.002974429
8  0.5093458  0.5607477 0.5456542 0.03083136 0.003083136
9  0.5280374  0.5794393 0.5522430 0.03294464 0.003294464
10 0.5373832  0.5887850 0.5584112 0.03229634 0.003229634
11 0.5327103  0.5981308 0.5656542 0.03325115 0.003325115
12 0.5514019  0.5981308 0.5738785 0.03371438 0.003371438
13 0.5794393  0.6168224 0.5830841 0.03446418 0.003446418
14 0.5841121  0.6261682 0.5925701 0.03638873 0.003638873
15 0.6121495  0.6401869 0.6112617 0.03823890 0.003823890

$permut.pc.stepwise.lda$best.p
[1] 4

$permut.pc.stepwise.lda$best.error
[1] 0.5373832

$permut.pc.stepwise.lda$best.pda
$permut.pc.stepwise.lda$best.pda$class
  [1] CTL CTL MET CTL MET MET CTL CTL CTL CTL CTL MET MET MET MET MET CTL CTL
 [19] CTL MET CTL MET CTL MET MET MET MET CTL CTL CTL CTL CTL MET MET CTL MET
 [37] CTL CTL MET MET CTL CTL MET MET MET CTL CTL CTL CTL CTL CTL CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET MET MET MET CTL MET CTL CTL MET
 [73] CTL CTL MET MET MET MET CTL MET CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET CTL MET CTL CTL CTL MET CTL MET CTL MET MET MET CTL MET MET CTL CTL
[109] CTL MET MET MET CTL MET MET MET MET CTL CTL CTL MET CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET MET MET CTL CTL CTL MET MET
[145] MET MET MET MET MET MET MET MET CTL CTL MET MET MET MET CTL CTL CTL CTL
[163] MET MET MET MET CTL MET MET MET MET MET MET MET CTL MET MET CTL CTL MET
[181] CTL CTL MET MET MET CTL MET MET MET MET MET MET CTL CTL CTL MET CTL MET
[199] CTL MET MET MET CTL MET MET MET CTL MET MET CTL MET MET MET MET
Levels: CTL MET PHO

$permut.pc.stepwise.lda$best.pda$posterior
                CTL       MET       PHO
YAL002W   0.4720787 0.3649859 0.1629354
YAL038W   0.4781304 0.3811438 0.1407258
YAR064W   0.2771703 0.4826278 0.2402019
YAR069C   0.4065658 0.3836314 0.2098027
YAR070C   0.3570125 0.3761688 0.2668187
YAR071W   0.3859680 0.3864903 0.2275417
YBL005W   0.4703511 0.3312708 0.1983781
YBL030C   0.4623450 0.3823135 0.1553415
YBR006W   0.4243209 0.3926073 0.1830718
YBR018C   0.4408678 0.3981881 0.1609441
YBR020W   0.4801208 0.3702930 0.1495862
YBR093C   0.3616934 0.3695558 0.2687508
YBR115C   0.3774992 0.4291886 0.1933122
YBR184W   0.3364072 0.4775530 0.1860398
YBR213W   0.3365161 0.4674723 0.1960116
YBR222C   0.3419580 0.4148738 0.2431682
YBR296C   0.3938538 0.3540030 0.2521433
YCL018W   0.4319375 0.4195806 0.1484819
YCR047C   0.4501928 0.3634404 0.1863669
YCR098C   0.3814855 0.3990274 0.2194871
YDL131W   0.4389979 0.3849315 0.1760706
YDL182W   0.3664079 0.4203612 0.2132310
YDL205C   0.4406717 0.4026371 0.1566912
YDL210W   0.3875907 0.4223631 0.1900461
YDR011W   0.3831154 0.4200894 0.1967952
YDR023W   0.2345815 0.5535015 0.2119170
YDR041W   0.3832513 0.3944697 0.2222790
YDR044W   0.4020997 0.3871100 0.2107902
YDR054C   0.4142756 0.3944886 0.1912357
YDR055W   0.4343503 0.3613951 0.2042546
YDR169C   0.4744787 0.3741191 0.1514022
YDR234W   0.4659308 0.3714247 0.1626446
YDR253C   0.2958842 0.5045135 0.1996023
YDR254W   0.2857210 0.5148135 0.1994655
YDR281C   0.4576642 0.3636997 0.1786361
YDR285W   0.3345443 0.4419146 0.2235411
YDR310C   0.4746264 0.3370300 0.1883436
YDR311W   0.4555603 0.3449741 0.1994656
YDR381C-A 0.3670952 0.4747189 0.1581858
YDR382W   0.3570113 0.4927708 0.1502180
YDR406W   0.4216297 0.3795414 0.1988289
YDR481C   0.4477100 0.3562695 0.1960205
YDR502C   0.3765732 0.4708390 0.1525878
YDR508C   0.3675347 0.4536451 0.1788202
YDR510W   0.3954289 0.4386376 0.1659335
YEL017C-A 0.4402239 0.3776545 0.1821216
YEL017W   0.4023183 0.3964810 0.2012007
YEL021W   0.4365694 0.3943253 0.1691053
YEL039C   0.4489908 0.3921114 0.1588978
YEL044W   0.3885693 0.3799327 0.2314980
YEL046C   0.4335822 0.3271438 0.2392741
YER026C   0.4744671 0.3767180 0.1488149
YER086W   0.4508984 0.3757859 0.1733157
YER091C-A 0.2085010 0.4744838 0.3170151
YER091C   0.3692201 0.4873699 0.1434100
YER092W   0.3722254 0.4463851 0.1813896
YER125W   0.3387268 0.4694152 0.1918579
YER179W   0.5193544 0.3539140 0.1267316
YFL023W   0.3287530 0.4459826 0.2252644
YFL024C   0.3255523 0.4459187 0.2285291
YFL031W   0.3009232 0.4645148 0.2345620
YFL032W   0.2001127 0.4790768 0.3208105
YFL033C   0.2930606 0.4721669 0.2347725
YFR030W   0.2776051 0.4943039 0.2280910
YGL009C   0.4143694 0.4226020 0.1630285
YGL055W   0.2673281 0.4855405 0.2471315
YGL056C   0.2443323 0.5210182 0.2346495
YGL073W   0.4177319 0.3574915 0.2247766
YGL125W   0.2585442 0.5046631 0.2367927
YGL213C   0.5012458 0.3330947 0.1656595
YGR019W   0.4680225 0.4079144 0.1240631
YGR044C   0.3765714 0.4322880 0.1911406
YGR088W   0.4417107 0.3838951 0.1743942
YGR121C   0.4811259 0.3532290 0.1656451
YGR154C   0.3310152 0.5080322 0.1609526
YGR155W   0.3501858 0.5202957 0.1295185
YGR157W   0.3602450 0.4787005 0.1610544
YGR204W   0.3944294 0.4271507 0.1784199
YGR233C   0.4682051 0.3439222 0.1878727
YGR281W   0.3442219 0.3785372 0.2772409
YHL022C   0.4566152 0.3804328 0.1629520
YHL036W   0.3659824 0.4429248 0.1910928
YHR001W-A 0.3134531 0.4927581 0.1937887
YHR007C   0.4145713 0.3782177 0.2072110
YHR008C   0.4366126 0.3829030 0.1804844
YHR014W   0.4153057 0.4116273 0.1730670
YHR037W   0.4699346 0.3718618 0.1582036
YHR046C   0.3034379 0.4882079 0.2083541
YHR082C   0.3217466 0.4499990 0.2282544
YHR083W   0.3300432 0.4304433 0.2395135
YHR089C   0.4079058 0.4256522 0.1664420
YHR107C   0.4458437 0.3836022 0.1705541
YHR136C   0.3416107 0.4213003 0.2370890
YHR137W   0.3894393 0.3832879 0.2272728
YHR153C   0.4188914 0.3934346 0.1876740
YHR168W   0.4119879 0.3902534 0.1977587
YHR215W   0.3433363 0.4285504 0.2281133
YIL015W   0.4435398 0.3959592 0.1605010
YIL046W   0.3409716 0.4227903 0.2362381
YIL072W   0.4797711 0.3659776 0.1542514
YIL092W   0.3320420 0.4492453 0.2187127
YIL106W   0.3036739 0.4445965 0.2517295
YIL107C   0.2908834 0.4592090 0.2499077
YIL126W   0.4273133 0.4110409 0.1616458
YIL127C   0.3661981 0.4638739 0.1699281
YIR017C   0.3186922 0.5315964 0.1497114
YIR034C   0.4854842 0.3845457 0.1299701
YJL012C   0.5152862 0.3369737 0.1477401
YJL106W   0.4190365 0.3969730 0.1839904
YJL117W   0.3583731 0.4565321 0.1850947
YJL119C   0.2711220 0.4448805 0.2839974
YJL129C   0.2853276 0.4555849 0.2590875
YJL153C   0.4282279 0.4155127 0.1562594
YJL167W   0.3838118 0.4578808 0.1583075
YJL168C   0.3556120 0.5082044 0.1361836
YJL186W   0.2156020 0.5205385 0.2638596
YJL187C   0.2234902 0.4813739 0.2951359
YJL219W   0.4484729 0.3753510 0.1761761
YJR010W   0.5594066 0.3393470 0.1012464
YJR048W   0.4330903 0.3874424 0.1794673
YJR073C   0.3852519 0.4068810 0.2078671
YJR094C   0.3825096 0.3773116 0.2401788
YJR095W   0.2801830 0.5085423 0.2112747
YJR113C   0.2344140 0.5012457 0.2643403
YJR115W   0.2616853 0.5054012 0.2329136
YJR137C   0.2240796 0.4931303 0.2827901
YJR138W   0.3458405 0.4652507 0.1889088
YJR139C   0.3184934 0.4730174 0.2084893
YJR152W   0.4196145 0.3907340 0.1896515
YKL001C   0.1902077 0.5363711 0.2734211
YKL007W   0.3440128 0.4547002 0.2012870
YKL008C   0.3393899 0.4550356 0.2055746
YKL015W   0.3524565 0.4900584 0.1574852
YKL016C   0.3416212 0.4810511 0.1773276
YKL088W   0.3635586 0.4503059 0.1861355
YKL128C   0.4150880 0.4206374 0.1642746
YKL139W   0.2145405 0.5554210 0.2300384
YKL182W   0.3646350 0.4095219 0.2258431
YKL192C   0.2457596 0.5403396 0.2139007
YKL216W   0.4700419 0.3784549 0.1515032
YKR039W   0.4511544 0.3751915 0.1736542
YKR048C   0.4245839 0.4160680 0.1593481
YKR050W   0.4096676 0.4170842 0.1732482
YKR068C   0.2788793 0.5123974 0.2087233
YKR069W   0.2856839 0.5075756 0.2067405
YLL008W   0.3299577 0.4894094 0.1806329
YLL010C   0.2945777 0.4888443 0.2165780
YLR050C   0.3020540 0.4454417 0.2525042
YLR081W   0.3273670 0.4392828 0.2333502
YLR092W   0.4159742 0.4355838 0.1484421
YLR142W   0.3538133 0.4539970 0.1921897
YLR162W   0.3349442 0.4578861 0.2071698
YLR180W   0.5501437 0.3067288 0.1431275
YLR263W   0.4700560 0.4000473 0.1298967
YLR278C   0.3702829 0.4669544 0.1627627
YLR283W   0.3353607 0.4907849 0.1738544
YLR303W   0.3433063 0.4628297 0.1938640
YLR329W   0.3783291 0.4244681 0.1972029
YLR420W   0.4383667 0.3823501 0.1792831
YLR438W   0.4170558 0.4154556 0.1674886
YML018C   0.4890098 0.3769434 0.1340468
YML051W   0.4485098 0.3869854 0.1645048
YML054C   0.3411011 0.4209097 0.2379892
YML075C   0.3609744 0.4271671 0.2118585
YML121W   0.3302942 0.4277878 0.2419180
YML122C   0.3809593 0.3905935 0.2284471
YML123C   0.4954963 0.2853428 0.2191609
YMR061W   0.2943919 0.4954332 0.2101749
YMR108W   0.3860581 0.4310495 0.1828924
YMR133W   0.4038155 0.4168140 0.1793706
YMR216C   0.3335725 0.4833429 0.1830847
YMR217W   0.3494878 0.4926163 0.1578959
YMR253C   0.2759795 0.4109339 0.3130866
YMR255W   0.2792780 0.4495444 0.2711776
YMR271C   0.4826849 0.3511299 0.1661852
YMR301C   0.2236590 0.5518071 0.2245339
YNL052W   0.3829174 0.4290105 0.1880720
YNL104C   0.4040600 0.3892591 0.2066809
YNL142W   0.4236953 0.3997182 0.1765865
YNL210W   0.3999549 0.4064839 0.1935612
YNL231C   0.4680118 0.3566531 0.1753351
YNL241C   0.4866248 0.3596197 0.1537555
YNL259C   0.2042410 0.5925360 0.2032230
YNL260C   0.2730978 0.5533128 0.1735895
YNL277W   0.3183600 0.4961936 0.1854463
YNR001C   0.5221557 0.3522248 0.1256195
YNR050C   0.3224001 0.4528863 0.2247137
YOL006C   0.3995164 0.4171912 0.1832924
YOL100W   0.3231385 0.4395788 0.2372827
YOR054C   0.3488426 0.4280744 0.2230830
YOR065W   0.3735646 0.4034509 0.2229845
YOR120W   0.4152072 0.4377881 0.1470047
YOR153W   0.4391782 0.3917482 0.1690737
YOR162C   0.4773280 0.3696825 0.1529895
YOR163W   0.5066558 0.3625916 0.1307526
YOR299W   0.2759554 0.5076852 0.2163594
YOR328W   0.4516087 0.3941776 0.1542137
YOR351C   0.3637719 0.4171219 0.2191061
YOR375C   0.4224171 0.4010373 0.1765456
YOR377W   0.4001693 0.4179856 0.1818451
YOR378W   0.2795415 0.4906766 0.2297819
YPL093W   0.2856643 0.5294885 0.1848472
YPL111W   0.4282478 0.4026459 0.1691063
YPL189W   0.2878429 0.5050011 0.2071561
YPL204W   0.2735688 0.5046458 0.2217854
YPL206C   0.2687287 0.5044014 0.2268699
YPL231W   0.4189023 0.3431204 0.2379773
YPL250C   0.2594671 0.4808512 0.2596817
YPR065W   0.3522948 0.5227946 0.1249106
YPR138C   0.4642013 0.3754531 0.1603456
YPR145W   0.3462945 0.4647731 0.1889324
YPR167C   0.2440809 0.5666674 0.1892517
YPR199C   0.2995403 0.4857231 0.2147366
YPR201W   0.2657519 0.4797173 0.2545308

$permut.pc.stepwise.lda$best.pda$call
lda(x = data.training, grouping = labels.training, CV = loo, 
    na.action = na.omit)

$permut.pc.stepwise.lda$best.pda$training.label
  [1] CTL CTL MET MET MET MET MET PHO CTL MET CTL MET CTL CTL MET CTL MET PHO
 [19] PHO PHO MET CTL CTL PHO PHO CTL MET CTL PHO MET CTL CTL MET CTL CTL MET
 [37] CTL PHO MET MET CTL CTL CTL PHO MET CTL CTL MET PHO MET MET MET MET CTL
 [55] PHO MET MET MET MET MET MET CTL CTL CTL MET MET CTL CTL MET CTL CTL PHO
 [73] CTL CTL CTL PHO PHO MET MET MET MET MET MET MET CTL CTL MET MET MET PHO
 [91] CTL MET CTL MET CTL CTL CTL MET CTL CTL MET PHO CTL MET PHO CTL PHO PHO
[109] MET CTL MET CTL MET MET CTL PHO MET MET MET MET PHO CTL MET CTL PHO PHO
[127] PHO CTL MET MET PHO CTL CTL CTL MET CTL PHO CTL CTL PHO PHO PHO CTL MET
[145] MET CTL CTL MET MET MET MET MET MET CTL MET CTL MET CTL MET CTL PHO CTL
[163] MET CTL PHO MET MET MET MET MET MET PHO MET PHO MET MET MET CTL CTL MET
[181] CTL PHO CTL MET CTL MET MET MET MET MET MET MET CTL CTL PHO PHO CTL CTL
[199] CTL PHO CTL PHO CTL PHO MET MET CTL CTL PHO CTL CTL PHO PHO MET
Levels: CTL MET PHO

$permut.pc.stepwise.lda$best.pda$pda.method
[1] "lda"

$permut.pc.stepwise.lda$best.pda$loo
[1] TRUE

$permut.pc.stepwise.lda$best.pda$validation
[1] "LOO"

$permut.pc.stepwise.lda$best.pda$confusion
      true
object CTL MET PHO
   CTL  38  31  14
   MET  42  61  28
   PHO   0   0   0
attr(,"error")
[1] 0.5373832



$stepwise.qda
$stepwise.qda$max.p
[1] 15

$stepwise.qda$errors
 [1] 0.17757009 0.07476636 0.07009346 0.05140187 0.06074766 0.05607477
 [7] 0.04672897 0.05140187 0.06074766 0.07009346 0.06542056 0.07476636
[13] 0.09345794 0.08878505 0.09345794

$stepwise.qda$confusion.table
   step              error added.var added.var.name CTL.CTL CTL.MET CTL.PHO
1     1  0.177570093457944         4      Pho4p.g.1      64      15       1
2     2  0.074766355140187        10        Met4p.1      73       3       4
3     3 0.0700934579439252         1        Pho4p.1      73       4       3
4     4 0.0514018691588785         7      Pho4p.t.1      74       4       2
5     5 0.0607476635514018         3        Pho4p.3      73       5       2
6     6 0.0560747663551402         8      Pho4p.t.2      76       3       1
7     7 0.0467289719626168         2        Pho4p.2      76       3       1
8     8 0.0514018691588785         5      Pho4p.g.2      76       2       2
9     9 0.0607476635514018        12        Met4p.3      75       3       2
10   10 0.0700934579439252         9      Pho4p.t.3      75       3       2
11   11 0.0654205607476636        11        Met4p.2      75       3       2
12   12  0.074766355140187        15       Met31p.3      73       6       1
13   13 0.0934579439252337        14       Met31p.2      72       7       1
14   14  0.088785046728972         6      Pho4p.g.3      73       7       0
15   15 0.0934579439252337        13       Met31p.1      73       7       0
   MET.CTL MET.MET MET.PHO PHO.CTL PHO.MET PHO.PHO
1       11      74       7       0       4      38
2        3      87       2       3       1      38
3        3      87       2       1       2      39
4        3      88       1       0       1      41
5        3      88       1       0       2      40
6        3      87       2       1       2      39
7        3      88       1       1       1      40
8        3      87       2       1       1      40
9        3      86       3       1       1      40
10       3      87       2       1       4      37
11       3      88       1       1       4      37
12       3      88       1       2       3      37
13       4      87       1       3       4      35
14       4      87       1       3       4      35
15       5      87       0       3       5      34

$stepwise.qda$best.pda
$stepwise.qda$best.pda$class
  [1] PHO PHO MET PHO PHO PHO CTL CTL CTL CTL CTL PHO CTL CTL CTL MET PHO CTL
 [19] PHO PHO CTL CTL CTL CTL CTL MET PHO CTL PHO PHO PHO CTL MET MET PHO CTL
 [37] PHO PHO MET MET CTL PHO MET MET MET PHO PHO CTL CTL PHO PHO CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET CTL MET MET CTL MET CTL CTL CTL
 [73] CTL CTL MET MET CTL MET PHO CTL CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET CTL PHO PHO CTL PHO PHO CTL PHO CTL MET MET MET MET MET MET CTL PHO
[109] CTL PHO PHO MET CTL MET MET MET MET CTL MET CTL MET CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET CTL MET CTL CTL PHO PHO MET
[145] MET MET MET MET MET MET CTL MET CTL CTL MET MET MET CTL CTL CTL PHO CTL
[163] CTL CTL PHO MET PHO MET CTL CTL MET MET PHO PHO PHO MET CTL CTL CTL CTL
[181] PHO CTL MET MET MET CTL CTL CTL MET MET CTL CTL CTL PHO PHO MET CTL CTL
[199] CTL PHO MET MET CTL MET MET MET CTL MET MET CTL CTL MET MET MET
Levels: CTL MET PHO

$stepwise.qda$best.pda$posterior
                   CTL          MET          PHO
YAL002W   8.744682e-05 9.697268e-04 9.989428e-01
YAL038W   5.860516e-06 7.577071e-05 9.999184e-01
YAR064W   5.903237e-05 9.992207e-01 7.203054e-04
YAR069C   1.427144e-01 1.102964e-04 8.571753e-01
YAR070C   2.340851e-07 2.860580e-07 9.999995e-01
YAR071W   2.340851e-07 2.860580e-07 9.999995e-01
YBL005W   9.999999e-01 6.304431e-08 1.476184e-15
YBL030C   9.999997e-01 3.186576e-07 6.542049e-13
YBR006W   9.981982e-01 1.801806e-03 1.651641e-11
YBR018C   9.999998e-01 1.675406e-07 1.203059e-16
YBR020W   1.000000e+00 1.006651e-08 2.400907e-16
YBR093C   1.719353e-09 1.928108e-09 1.000000e+00
YBR115C   9.999997e-01 3.084195e-07 1.704668e-11
YBR184W   7.918657e-01 2.081343e-01 7.466870e-09
YBR213W   8.716363e-01 1.283637e-01 9.868639e-12
YBR222C   5.241275e-02 6.761589e-01 2.714283e-01
YBR296C   2.485138e-06 3.287329e-06 9.999942e-01
YCL018W   9.999997e-01 2.851572e-07 2.326217e-19
YCR047C   7.167923e-03 3.114775e-02 9.616843e-01
YCR098C   5.672482e-05 1.046220e-02 9.894811e-01
YDL131W   9.999639e-01 3.611859e-05 2.311522e-12
YDL182W   9.999313e-01 6.865111e-05 2.628120e-08
YDL205C   1.000000e+00 5.602611e-09 6.134578e-16
YDL210W   9.998714e-01 1.285614e-04 1.728885e-15
YDR011W   9.999972e-01 2.839459e-06 1.731375e-14
YDR023W   2.970801e-04 9.997029e-01 5.279428e-09
YDR041W   3.282220e-04 1.841794e-03 9.978300e-01
YDR044W   9.999998e-01 1.755890e-07 4.759668e-16
YDR054C   1.344855e-04 7.684084e-03 9.921814e-01
YDR055W   5.276328e-04 6.968321e-03 9.925040e-01
YDR169C   2.007438e-06 3.816530e-03 9.961815e-01
YDR234W   9.995638e-01 4.362093e-04 3.196816e-08
YDR253C   1.105850e-05 9.999889e-01 9.098143e-08
YDR254W   9.256802e-06 9.999906e-01 1.066925e-07
YDR281C   3.853756e-03 2.200306e-02 9.741432e-01
YDR285W   9.999628e-01 3.717433e-05 9.657874e-19
YDR310C   1.160221e-08 8.408145e-05 9.999159e-01
YDR311W   2.528174e-08 8.835054e-05 9.999116e-01
YDR381C-A 6.777501e-05 9.999322e-01 1.291745e-14
YDR382W   6.777501e-05 9.999322e-01 1.291745e-14
YDR406W   9.999996e-01 3.597934e-07 2.804536e-15
YDR481C   1.863120e-01 6.228707e-03 8.074593e-01
YDR502C   1.311388e-02 9.868861e-01 2.411852e-09
YDR508C   3.589674e-03 9.964102e-01 1.231936e-07
YDR510W   3.352652e-03 9.966472e-01 1.145461e-07
YEL017C-A 1.642263e-02 2.508499e-05 9.835523e-01
YEL017W   2.277152e-02 6.160619e-05 9.771669e-01
YEL021W   1.000000e+00 2.623278e-08 1.837995e-21
YEL039C   9.999996e-01 3.515820e-07 2.201353e-16
YEL044W   2.617174e-02 2.736703e-01 7.001579e-01
YEL046C   3.410514e-03 4.455742e-02 9.520321e-01
YER026C   9.999098e-01 9.015879e-05 6.843713e-13
YER086W   1.000000e+00 9.604207e-09 2.243782e-22
YER091C-A 4.482262e-04 9.995517e-01 3.773810e-08
YER091C   8.454792e-08 9.999902e-01 9.747776e-06
YER092W   8.454792e-08 9.999902e-01 9.747776e-06
YER125W   1.158820e-03 9.988411e-01 7.641647e-08
YER179W   9.999997e-01 2.861294e-07 3.813051e-14
YFL023W   1.822735e-03 9.981773e-01 1.783726e-10
YFL024C   1.822735e-03 9.981773e-01 1.783726e-10
YFL031W   3.790235e-06 9.999962e-01 8.808877e-11
YFL032W   1.222101e-06 9.999988e-01 2.347598e-10
YFL033C   3.790235e-06 9.999962e-01 8.808877e-11
YFR030W   1.620170e-05 9.999838e-01 1.915269e-11
YGL009C   1.000000e+00 6.409810e-09 1.691329e-21
YGL055W   1.202564e-06 9.999987e-01 4.961346e-08
YGL056C   1.202564e-06 9.999987e-01 4.961346e-08
YGL073W   9.218811e-01 7.168461e-02 6.434332e-03
YGL125W   1.078691e-04 9.998862e-01 5.894145e-06
YGL213C   9.459911e-01 1.324616e-03 5.268433e-02
YGR019W   9.998763e-01 1.236521e-04 4.824240e-13
YGR044C   9.733509e-01 5.417610e-06 2.664367e-02
YGR088W   9.998188e-01 1.811568e-04 6.030088e-08
YGR121C   1.000000e+00 1.737604e-08 2.548049e-15
YGR154C   3.468068e-04 9.996465e-01 6.660708e-06
YGR155W   3.468068e-04 9.996465e-01 6.660708e-06
YGR157W   9.943038e-01 5.696204e-03 7.216753e-11
YGR204W   4.776616e-03 9.950668e-01 1.565429e-04
YGR233C   1.693123e-05 4.842803e-04 9.994988e-01
YGR281W   7.376304e-01 2.621863e-01 1.832565e-04
YHL022C   1.000000e+00 7.847570e-10 1.290697e-22
YHL036W   1.914843e-02 9.774085e-01 3.443039e-03
YHR001W-A 4.662577e-06 9.999953e-01 2.224911e-08
YHR007C   9.999802e-01 1.984992e-05 7.345102e-15
YHR008C   9.999664e-01 3.356756e-05 2.873112e-12
YHR014W   9.604680e-01 3.953197e-02 1.262106e-10
YHR037W   9.925704e-01 7.030432e-03 3.991225e-04
YHR046C   1.977192e-07 9.999998e-01 4.831129e-08
YHR082C   1.421025e-03 9.985789e-01 6.080952e-08
YHR083W   1.614959e-03 9.983849e-01 1.262495e-07
YHR089C   1.287693e-02 9.871224e-01 6.796406e-07
YHR107C   7.536759e-01 1.217311e-02 2.341510e-01
YHR136C   6.635767e-07 6.191226e-05 9.999374e-01
YHR137W   5.698797e-07 6.470178e-05 9.999347e-01
YHR153C   9.987398e-01 1.260165e-03 8.607420e-10
YHR168W   6.556937e-06 4.012664e-03 9.959808e-01
YHR215W   2.340851e-07 2.860580e-07 9.999995e-01
YIL015W   9.999956e-01 4.379050e-06 3.190977e-18
YIL046W   2.182372e-03 4.773227e-03 9.930444e-01
YIL072W   9.999335e-01 6.646913e-05 6.867376e-11
YIL092W   3.207165e-03 9.967912e-01 1.623270e-06
YIL106W   5.004949e-03 9.949903e-01 4.737168e-06
YIL107C   3.353740e-03 9.966448e-01 1.503254e-06
YIL126W   6.336376e-03 9.936589e-01 4.717472e-06
YIL127C   7.512954e-05 9.999247e-01 2.170791e-07
YIR017C   5.142756e-04 9.994857e-01 1.136238e-09
YIR034C   9.912544e-01 8.705439e-03 4.019719e-05
YJL012C   2.028642e-07 3.706483e-05 9.999627e-01
YJL106W   9.999534e-01 4.656188e-05 5.802708e-12
YJL117W   6.620918e-03 1.171890e-02 9.816602e-01
YJL119C   3.784860e-02 3.019822e-03 9.591316e-01
YJL129C   2.017306e-05 9.989702e-01 1.009622e-03
YJL153C   9.997483e-01 2.516907e-04 1.457036e-12
YJL167W   1.029748e-03 9.989702e-01 4.432026e-08
YJL168C   7.709527e-04 9.992290e-01 2.215320e-08
YJL186W   4.946316e-05 9.999505e-01 2.735100e-11
YJL187C   4.946316e-05 9.999505e-01 2.735100e-11
YJL219W   9.999437e-01 5.627124e-05 1.728302e-08
YJR010W   1.988325e-07 9.999998e-01 1.740765e-12
YJR048W   9.969640e-01 3.036005e-03 8.191917e-11
YJR073C   9.001110e-02 8.858685e-01 2.412039e-02
YJR094C   9.999889e-01 1.114833e-05 4.028752e-10
YJR095W   8.250586e-09 1.000000e+00 6.005721e-10
YJR113C   4.053514e-06 9.999959e-01 2.333886e-09
YJR115W   3.627867e-06 9.999964e-01 7.148026e-10
YJR137C   7.186271e-02 9.169989e-01 1.113842e-02
YJR138W   4.219635e-08 1.000000e+00 1.771532e-09
YJR139C   6.686150e-05 9.999331e-01 5.673842e-13
YJR152W   7.472278e-01 2.527721e-01 4.138092e-08
YKL001C   8.096696e-08 9.999999e-01 3.985320e-15
YKL007W   4.030826e-03 9.956263e-01 3.428459e-04
YKL008C   4.030826e-03 9.956263e-01 3.428459e-04
YKL015W   4.511444e-06 9.999955e-01 1.811923e-12
YKL016C   2.894125e-06 9.999971e-01 6.543832e-13
YKL088W   1.107362e-04 9.998819e-01 7.393886e-06
YKL128C   3.363585e-03 9.966358e-01 5.917297e-07
YKL139W   9.886861e-06 9.999899e-01 2.026929e-07
YKL182W   9.999240e-01 7.598255e-05 1.374339e-13
YKL192C   1.038471e-04 9.998962e-01 4.841516e-10
YKL216W   1.000000e+00 6.432956e-09 8.164574e-18
YKR039W   1.000000e+00 1.663217e-08 6.000866e-18
YKR048C   2.340440e-04 1.479260e-04 9.996180e-01
YKR050W   2.340440e-04 1.479260e-04 9.996180e-01
YKR068C   2.297818e-05 9.975197e-01 2.457317e-03
YKR069W   2.164652e-05 9.978107e-01 2.167687e-03
YLL008W   5.396180e-04 9.994602e-01 1.858644e-07
YLL010C   4.824924e-04 9.995166e-01 8.831700e-07
YLR050C   1.655335e-04 9.998337e-01 7.196808e-07
YLR081W   5.015651e-04 9.994984e-01 1.443378e-09
YLR092W   6.564244e-05 9.999238e-01 1.057063e-05
YLR142W   6.223681e-01 3.776310e-01 9.538416e-07
YLR162W   1.842983e-04 6.891901e-01 3.106256e-01
YLR180W   9.999997e-01 2.651600e-07 5.304335e-08
YLR263W   9.999982e-01 1.840479e-06 7.056018e-17
YLR278C   9.562634e-04 9.987318e-01 3.119291e-04
YLR283W   1.016594e-03 9.987104e-01 2.729627e-04
YLR303W   1.167189e-06 9.999986e-01 2.454541e-07
YLR329W   9.999777e-01 2.227347e-05 2.632359e-12
YLR420W   9.999999e-01 9.488533e-08 3.791336e-13
YLR438W   9.999632e-01 3.678680e-05 7.873052e-09
YML018C   1.825173e-05 3.716382e-01 6.283435e-01
YML051W   9.999994e-01 5.815868e-07 8.848721e-19
YML054C   9.894328e-01 5.100027e-03 5.467142e-03
YML075C   9.999965e-01 3.476415e-06 3.337156e-14
YML121W   1.966730e-06 4.547404e-06 9.999935e-01
YML122C   2.138600e-02 6.336449e-01 3.449691e-01
YML123C   6.897321e-10 2.639791e-08 1.000000e+00
YMR061W   7.874837e-08 9.999453e-01 5.458856e-05
YMR108W   9.999970e-01 3.012425e-06 4.292968e-20
YMR133W   9.999926e-01 7.379705e-06 3.050248e-18
YMR216C   5.299259e-06 9.999947e-01 1.744646e-08
YMR217W   3.730674e-06 9.999963e-01 9.169115e-09
YMR253C   1.596671e-05 1.758813e-03 9.982252e-01
YMR255W   1.596671e-05 1.758813e-03 9.982252e-01
YMR271C   4.527185e-07 6.118408e-02 9.388155e-01
YMR301C   9.906831e-08 9.999999e-01 3.652684e-15
YNL052W   9.991392e-01 8.608030e-04 1.053817e-14
YNL104C   6.079964e-01 1.454267e-01 2.465769e-01
YNL142W   9.999971e-01 2.948763e-06 5.886972e-18
YNL210W   1.000000e+00 1.656303e-08 1.764107e-20
YNL231C   3.079054e-06 7.677898e-04 9.992291e-01
YNL241C   1.000000e+00 2.242560e-09 1.184555e-11
YNL259C   6.461077e-09 1.000000e+00 1.205055e-16
YNL260C   7.461615e-12 1.000000e+00 6.017690e-15
YNL277W   1.462218e-07 9.999999e-01 4.024314e-11
YNR001C   1.000000e+00 1.444523e-10 4.784044e-17
YNR050C   8.129133e-01 2.343486e-04 1.868524e-01
YOL006C   9.999602e-01 3.975657e-05 1.941594e-14
YOL100W   1.708747e-07 7.996900e-01 2.003098e-01
YOR054C   4.354792e-06 9.975940e-01 2.401691e-03
YOR065W   8.384016e-01 1.595938e-01 2.004572e-03
YOR120W   9.999506e-01 4.937236e-05 1.382941e-13
YOR153W   9.998945e-01 1.054609e-04 1.652868e-13
YOR162C   2.043107e-03 3.816547e-03 9.941403e-01
YOR163W   2.043107e-03 3.816547e-03 9.941403e-01
YOR299W   4.866185e-04 9.995134e-01 2.196222e-12
YOR328W   9.997632e-01 2.368015e-04 3.225325e-09
YOR351C   9.999994e-01 5.901295e-07 8.131320e-16
YOR375C   9.999992e-01 2.095739e-07 6.106910e-07
YOR377W   5.370695e-06 6.376658e-02 9.362281e-01
YOR378W   5.416726e-04 9.994583e-01 9.915788e-11
YPL093W   1.254226e-06 9.999987e-01 1.012960e-11
YPL111W   1.000000e+00 1.698004e-09 1.476246e-19
YPL189W   1.206634e-05 9.999592e-01 2.869328e-05
YPL204W   2.791413e-06 9.999972e-01 8.170526e-11
YPL206C   2.791413e-06 9.999972e-01 8.170526e-11
YPL231W   9.983990e-01 1.600974e-03 5.599107e-08
YPL250C   1.235909e-03 8.551991e-01 1.435650e-01
YPR065W   1.659336e-01 8.340664e-01 2.608940e-08
YPR138C   1.000000e+00 1.022590e-10 7.211206e-25
YPR145W   9.986835e-01 1.316516e-03 1.547571e-08
YPR167C   4.411185e-04 9.995589e-01 2.389396e-11
YPR199C   1.137060e-03 9.988613e-01 1.631518e-06
YPR201W   3.040232e-03 9.969563e-01 3.439221e-06

$stepwise.qda$best.pda$call
qda(x = data.training, grouping = labels.training, CV = loo, 
    na.action = na.omit)

$stepwise.qda$best.pda$training.names
  [1] "YAL002W"   "YAL038W"   "YAR064W"   "YAR069C"   "YAR070C"   "YAR071W"  
  [7] "YBL005W"   "YBL030C"   "YBR006W"   "YBR018C"   "YBR020W"   "YBR093C"  
 [13] "YBR115C"   "YBR184W"   "YBR213W"   "YBR222C"   "YBR296C"   "YCL018W"  
 [19] "YCR047C"   "YCR098C"   "YDL131W"   "YDL182W"   "YDL205C"   "YDL210W"  
 [25] "YDR011W"   "YDR023W"   "YDR041W"   "YDR044W"   "YDR054C"   "YDR055W"  
 [31] "YDR169C"   "YDR234W"   "YDR253C"   "YDR254W"   "YDR281C"   "YDR285W"  
 [37] "YDR310C"   "YDR311W"   "YDR381C-A" "YDR382W"   "YDR406W"   "YDR481C"  
 [43] "YDR502C"   "YDR508C"   "YDR510W"   "YEL017C-A" "YEL017W"   "YEL021W"  
 [49] "YEL039C"   "YEL044W"   "YEL046C"   "YER026C"   "YER086W"   "YER091C-A"
 [55] "YER091C"   "YER092W"   "YER125W"   "YER179W"   "YFL023W"   "YFL024C"  
 [61] "YFL031W"   "YFL032W"   "YFL033C"   "YFR030W"   "YGL009C"   "YGL055W"  
 [67] "YGL056C"   "YGL073W"   "YGL125W"   "YGL213C"   "YGR019W"   "YGR044C"  
 [73] "YGR088W"   "YGR121C"   "YGR154C"   "YGR155W"   "YGR157W"   "YGR204W"  
 [79] "YGR233C"   "YGR281W"   "YHL022C"   "YHL036W"   "YHR001W-A" "YHR007C"  
 [85] "YHR008C"   "YHR014W"   "YHR037W"   "YHR046C"   "YHR082C"   "YHR083W"  
 [91] "YHR089C"   "YHR107C"   "YHR136C"   "YHR137W"   "YHR153C"   "YHR168W"  
 [97] "YHR215W"   "YIL015W"   "YIL046W"   "YIL072W"   "YIL092W"   "YIL106W"  
[103] "YIL107C"   "YIL126W"   "YIL127C"   "YIR017C"   "YIR034C"   "YJL012C"  
[109] "YJL106W"   "YJL117W"   "YJL119C"   "YJL129C"   "YJL153C"   "YJL167W"  
[115] "YJL168C"   "YJL186W"   "YJL187C"   "YJL219W"   "YJR010W"   "YJR048W"  
[121] "YJR073C"   "YJR094C"   "YJR095W"   "YJR113C"   "YJR115W"   "YJR137C"  
[127] "YJR138W"   "YJR139C"   "YJR152W"   "YKL001C"   "YKL007W"   "YKL008C"  
[133] "YKL015W"   "YKL016C"   "YKL088W"   "YKL128C"   "YKL139W"   "YKL182W"  
[139] "YKL192C"   "YKL216W"   "YKR039W"   "YKR048C"   "YKR050W"   "YKR068C"  
[145] "YKR069W"   "YLL008W"   "YLL010C"   "YLR050C"   "YLR081W"   "YLR092W"  
[151] "YLR142W"   "YLR162W"   "YLR180W"   "YLR263W"   "YLR278C"   "YLR283W"  
[157] "YLR303W"   "YLR329W"   "YLR420W"   "YLR438W"   "YML018C"   "YML051W"  
[163] "YML054C"   "YML075C"   "YML121W"   "YML122C"   "YML123C"   "YMR061W"  
[169] "YMR108W"   "YMR133W"   "YMR216C"   "YMR217W"   "YMR253C"   "YMR255W"  
[175] "YMR271C"   "YMR301C"   "YNL052W"   "YNL104C"   "YNL142W"   "YNL210W"  
[181] "YNL231C"   "YNL241C"   "YNL259C"   "YNL260C"   "YNL277W"   "YNR001C"  
[187] "YNR050C"   "YOL006C"   "YOL100W"   "YOR054C"   "YOR065W"   "YOR120W"  
[193] "YOR153W"   "YOR162C"   "YOR163W"   "YOR299W"   "YOR328W"   "YOR351C"  
[199] "YOR375C"   "YOR377W"   "YOR378W"   "YPL093W"   "YPL111W"   "YPL189W"  
[205] "YPL204W"   "YPL206C"   "YPL231W"   "YPL250C"   "YPR065W"   "YPR138C"  
[211] "YPR145W"   "YPR167C"   "YPR199C"   "YPR201W"  

$stepwise.qda$best.pda$training.label
  [1] PHO CTL MET PHO PHO PHO CTL CTL CTL CTL CTL PHO CTL CTL MET PHO PHO CTL
 [19] PHO PHO CTL CTL CTL CTL CTL MET PHO CTL PHO PHO PHO CTL MET MET PHO CTL
 [37] PHO PHO MET MET CTL PHO MET MET MET PHO PHO CTL CTL PHO PHO CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET CTL MET MET CTL MET CTL CTL CTL
 [73] CTL CTL MET MET CTL MET PHO CTL CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET PHO PHO PHO CTL PHO PHO CTL MET CTL MET MET MET MET MET MET CTL PHO
[109] CTL PHO PHO MET CTL MET MET MET MET CTL MET CTL CTL CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET CTL MET CTL CTL PHO PHO MET
[145] MET MET MET MET CTL MET CTL MET MET CTL MET MET MET CTL CTL CTL PHO CTL
[163] CTL CTL PHO MET PHO MET CTL CTL MET MET PHO PHO PHO MET CTL CTL CTL CTL
[181] PHO MET MET MET MET CTL CTL CTL MET MET CTL CTL CTL PHO PHO MET CTL CTL
[199] CTL PHO MET MET CTL MET MET MET CTL MET CTL CTL CTL MET MET MET
Levels: CTL MET PHO

$stepwise.qda$best.pda$pda.method
[1] "qda"

$stepwise.qda$best.pda$loo
[1] TRUE

$stepwise.qda$best.pda$validation
[1] "LOO"

$stepwise.qda$best.pda$confusion
      true
object CTL MET PHO
   CTL  76   3   1
   MET   3  88   1
   PHO   1   1  40
attr(,"error")
[1] 0.04672897


$stepwise.qda$best.p
[1] 7

$stepwise.qda$best.vars
[1]  4 10  1  7  3  8  2

$stepwise.qda$best.var.names
[1] "Pho4p.g.1" "Met4p.1"   "Pho4p.1"   "Pho4p.t.1" "Pho4p.3"   "Pho4p.t.2"
[7] "Pho4p.2"  

$stepwise.qda$best.error
[1] 0.04672897

$stepwise.qda$pc.transform
[1] FALSE

$stepwise.qda$var.order
 [1]  4 10  1  7  3  8  2  5 12  9 11 15 14  6 13


$pc.stepwise.qda
$pc.stepwise.qda$max.p
[1] 15

$pc.stepwise.qda$errors
 [1] 0.29906542 0.12149533 0.08411215 0.07943925 0.07943925 0.08878505
 [7] 0.07943925 0.08411215 0.09345794 0.08878505 0.08878505 0.09345794
[13] 0.09345794 0.09345794 0.09345794

$pc.stepwise.qda$confusion.table
   step              error added.var added.var.name CTL.CTL CTL.MET CTL.PHO
1     1  0.299065420560748         1         Comp.1      65      15       0
2     2  0.121495327102804         2         Comp.2      69       8       3
3     3 0.0841121495327103         8         Comp.8      69       7       4
4     4 0.0794392523364486         5         Comp.5      69       9       2
5     5 0.0794392523364486         3         Comp.3      70       9       1
6     6  0.088785046728972        13        Comp.13      69      10       1
7     7 0.0794392523364486         7         Comp.7      71       8       1
8     8 0.0841121495327103        14        Comp.14      71       8       1
9     9 0.0934579439252337        10        Comp.10      71       8       1
10   10  0.088785046728972        11        Comp.11      72       7       1
11   11  0.088785046728972         4         Comp.4      72       6       2
12   12 0.0934579439252337        15        Comp.15      73       7       0
13   13 0.0934579439252337         6         Comp.6      74       6       0
14   14 0.0934579439252337        12        Comp.12      73       7       0
15   15 0.0934579439252337         9         Comp.9      73       7       0
   MET.CTL MET.MET MET.PHO PHO.CTL PHO.MET PHO.PHO
1       16      72       4       1      28      13
2        4      85       3       1       7      34
3        2      89       1       2       2      38
4        3      87       2       0       1      41
5        3      86       3       0       1      41
6        3      86       3       0       2      40
7        3      86       3       1       1      40
8        3      86       3       1       2      39
9        3      86       3       3       2      37
10       4      87       1       3       3      36
11       4      87       1       3       3      36
12       4      86       2       2       5      35
13       5      86       1       3       5      34
14       5      87       0       3       5      34
15       5      87       0       3       5      34

$pc.stepwise.qda$best.pda
$pc.stepwise.qda$best.pda$class
  [1] PHO PHO MET PHO PHO PHO CTL CTL CTL CTL CTL PHO CTL MET CTL PHO PHO CTL
 [19] PHO PHO CTL CTL CTL CTL CTL MET PHO CTL PHO PHO PHO CTL MET MET PHO CTL
 [37] PHO PHO MET MET CTL PHO MET MET MET PHO PHO CTL CTL PHO PHO CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET CTL MET MET CTL MET CTL CTL CTL
 [73] CTL CTL MET MET MET MET PHO MET CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET CTL PHO PHO CTL PHO PHO CTL PHO CTL MET MET MET MET MET MET CTL PHO
[109] CTL PHO MET MET CTL MET MET MET MET CTL MET CTL MET CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET CTL MET CTL CTL PHO PHO MET
[145] MET MET MET MET MET MET MET MET CTL CTL MET MET MET CTL CTL CTL PHO CTL
[163] CTL CTL PHO PHO PHO MET CTL CTL MET MET PHO PHO PHO MET CTL CTL CTL CTL
[181] PHO CTL MET MET MET CTL CTL CTL MET PHO MET CTL CTL PHO PHO MET CTL CTL
[199] CTL PHO MET MET CTL MET MET MET CTL MET MET CTL CTL MET MET MET
Levels: CTL MET PHO

$pc.stepwise.qda$best.pda$posterior
                   CTL          MET          PHO
YAL002W   9.817902e-03 2.971904e-04 9.898849e-01
YAL038W   3.453204e-02 1.646324e-02 9.490047e-01
YAR064W   8.757501e-07 9.882778e-01 1.172133e-02
YAR069C   1.314822e-02 1.794349e-05 9.868338e-01
YAR070C   3.579438e-05 3.690088e-08 9.999642e-01
YAR071W   2.446281e-05 4.680425e-09 9.999755e-01
YBL005W   1.000000e+00 1.030007e-08 2.023883e-21
YBL030C   9.999988e-01 1.178442e-06 2.049632e-16
YBR006W   9.999201e-01 7.987552e-05 1.102536e-13
YBR018C   9.999970e-01 2.966566e-06 1.248509e-16
YBR020W   1.000000e+00 7.548224e-09 1.488091e-18
YBR093C   1.210409e-07 8.519993e-11 9.999999e-01
YBR115C   9.999991e-01 8.622377e-07 1.735122e-15
YBR184W   2.737528e-01 7.262472e-01 2.453931e-09
YBR213W   8.377894e-01 1.622101e-01 4.970286e-07
YBR222C   1.188655e-01 1.625634e-01 7.185711e-01
YBR296C   2.335471e-05 5.725608e-08 9.999766e-01
YCL018W   9.999994e-01 6.382776e-07 1.070859e-18
YCR047C   1.588703e-02 3.153873e-01 6.687256e-01
YCR098C   2.297138e-03 1.830317e-03 9.958725e-01
YDL131W   9.999996e-01 4.498045e-07 5.375906e-18
YDL182W   9.999971e-01 2.855367e-06 2.355772e-11
YDL205C   9.999997e-01 2.556013e-07 1.519546e-19
YDL210W   9.998684e-01 1.315886e-04 4.296169e-15
YDR011W   9.999956e-01 4.355287e-06 9.363332e-14
YDR023W   4.763323e-08 1.000000e+00 2.409618e-11
YDR041W   8.320302e-06 3.509891e-03 9.964818e-01
YDR044W   9.999999e-01 5.659319e-08 2.842937e-21
YDR054C   7.289228e-03 1.469868e-02 9.780121e-01
YDR055W   2.277367e-04 7.172728e-04 9.990550e-01
YDR169C   4.668829e-06 1.239763e-05 9.999829e-01
YDR234W   9.977354e-01 2.262963e-03 1.629684e-06
YDR253C   1.202451e-06 9.999988e-01 3.010855e-11
YDR254W   2.590119e-06 9.999974e-01 2.121812e-10
YDR281C   1.038146e-02 1.120633e-03 9.884979e-01
YDR285W   9.998914e-01 1.085915e-04 2.209879e-15
YDR310C   2.101389e-08 1.861027e-04 9.998139e-01
YDR311W   9.750840e-08 1.546561e-03 9.984533e-01
YDR381C-A 6.084467e-04 9.993916e-01 4.354705e-11
YDR382W   1.015858e-03 9.989841e-01 9.431019e-13
YDR406W   9.999990e-01 9.616303e-07 4.034041e-24
YDR481C   3.437630e-02 1.754670e-03 9.638690e-01
YDR502C   6.414756e-04 9.993584e-01 9.247786e-08
YDR508C   2.874496e-02 9.712171e-01 3.794457e-05
YDR510W   1.998974e-02 9.800047e-01 5.518570e-06
YEL017C-A 1.113511e-05 1.598996e-07 9.999887e-01
YEL017W   1.686991e-04 2.236726e-06 9.998291e-01
YEL021W   1.000000e+00 1.603934e-08 4.552937e-22
YEL039C   9.999997e-01 3.313973e-07 3.222702e-19
YEL044W   6.463882e-02 4.673461e-01 4.680150e-01
YEL046C   3.934270e-02 7.046236e-02 8.901949e-01
YER026C   9.996983e-01 3.016581e-04 2.215359e-12
YER086W   1.000000e+00 1.270757e-08 1.358355e-27
YER091C-A 5.252918e-04 9.993904e-01 8.429808e-05
YER091C   9.731669e-07 9.999976e-01 1.412669e-06
YER092W   9.731669e-07 9.999976e-01 1.412669e-06
YER125W   3.141370e-04 9.996858e-01 1.372178e-08
YER179W   9.999859e-01 1.412044e-05 1.601172e-13
YFL023W   6.970368e-03 9.922055e-01 8.240823e-04
YFL024C   5.904483e-03 9.929910e-01 1.104506e-03
YFL031W   6.549412e-04 9.992804e-01 6.463862e-05
YFL032W   1.309279e-08 9.999996e-01 4.334420e-07
YFL033C   6.549412e-04 9.992804e-01 6.463862e-05
YFR030W   1.227404e-03 9.987645e-01 8.070346e-06
YGL009C   9.999988e-01 1.172920e-06 1.900665e-17
YGL055W   1.055613e-06 9.999969e-01 2.084303e-06
YGL056C   4.622185e-07 9.999992e-01 3.559096e-07
YGL073W   9.991603e-01 8.379510e-04 1.764457e-06
YGL125W   1.157081e-05 9.999882e-01 2.766709e-07
YGL213C   9.659104e-01 1.626219e-02 1.782737e-02
YGR019W   9.999296e-01 7.040623e-05 1.979930e-12
YGR044C   9.999831e-01 9.113847e-07 1.599134e-05
YGR088W   9.996616e-01 3.383934e-04 2.670847e-11
YGR121C   1.000000e+00 6.588035e-09 1.349797e-20
YGR154C   8.175390e-04 9.991824e-01 3.939560e-08
YGR155W   5.291492e-04 9.994708e-01 6.616093e-09
YGR157W   3.146777e-01 6.853215e-01 8.363938e-07
YGR204W   4.144213e-02 9.513086e-01 7.249235e-03
YGR233C   6.760452e-06 3.304514e-03 9.966887e-01
YGR281W   2.404184e-02 9.617537e-01 1.420450e-02
YHL022C   1.000000e+00 2.873793e-09 4.511833e-22
YHL036W   9.544548e-04 9.988265e-01 2.190315e-04
YHR001W-A 2.376376e-05 9.999757e-01 5.504641e-07
YHR007C   9.999845e-01 1.550990e-05 4.362215e-12
YHR008C   9.999907e-01 9.283601e-06 2.106961e-13
YHR014W   9.924096e-01 7.590382e-03 9.840573e-10
YHR037W   9.977693e-01 2.204849e-03 2.586102e-05
YHR046C   1.242620e-04 9.998600e-01 1.577844e-05
YHR082C   2.693531e-02 9.730480e-01 1.666766e-05
YHR083W   1.307904e-01 8.690270e-01 1.826261e-04
YHR089C   1.793825e-01 8.205174e-01 1.001622e-04
YHR107C   7.780709e-01 1.074458e-01 1.144833e-01
YHR136C   6.696057e-08 2.561151e-05 9.999743e-01
YHR137W   9.674277e-08 3.569606e-05 9.999642e-01
YHR153C   9.872008e-01 1.279730e-02 1.870803e-06
YHR168W   7.621576e-06 8.983436e-05 9.999025e-01
YHR215W   2.446281e-05 4.680425e-09 9.999755e-01
YIL015W   9.999833e-01 1.666906e-05 1.797047e-16
YIL046W   8.352571e-03 3.596103e-01 6.320371e-01
YIL072W   9.999513e-01 4.869779e-05 2.017137e-11
YIL092W   4.955221e-02 9.504340e-01 1.373705e-05
YIL106W   4.625107e-02 9.527672e-01 9.817369e-04
YIL107C   3.292642e-02 9.370811e-01 2.999250e-02
YIL126W   6.224067e-03 9.937734e-01 2.580866e-06
YIL127C   1.253245e-03 9.987240e-01 2.275397e-05
YIR017C   8.247923e-04 9.991752e-01 6.321776e-10
YIR034C   9.974459e-01 2.518614e-03 3.553509e-05
YJL012C   2.002847e-05 8.704874e-06 9.999713e-01
YJL106W   9.991338e-01 8.662184e-04 1.056007e-11
YJL117W   1.471895e-01 1.182833e-02 8.409822e-01
YJL119C   2.029677e-03 7.348585e-01 2.631118e-01
YJL129C   7.184521e-06 9.820979e-01 1.789493e-02
YJL153C   9.867211e-01 1.327892e-02 5.167227e-13
YJL167W   3.190605e-03 9.967093e-01 1.001044e-04
YJL168C   1.411061e-02 9.858810e-01 8.420762e-06
YJL186W   2.514890e-05 9.999709e-01 3.929982e-06
YJL187C   1.986925e-04 9.997987e-01 2.587116e-06
YJL219W   9.999996e-01 4.011195e-07 4.287001e-11
YJR010W   5.985538e-07 9.999993e-01 1.230099e-07
YJR048W   9.977864e-01 2.213611e-03 7.630891e-10
YJR073C   7.898411e-02 9.153964e-01 5.619447e-03
YJR094C   9.999687e-01 3.127222e-05 8.938253e-12
YJR095W   3.127788e-08 9.999999e-01 9.182838e-08
YJR113C   5.647032e-06 9.999943e-01 4.319173e-09
YJR115W   2.025573e-05 9.999797e-01 2.678642e-08
YJR137C   1.231553e-03 9.948939e-01 3.874552e-03
YJR138W   3.943579e-06 9.979224e-01 2.073650e-03
YJR139C   7.818798e-04 9.992181e-01 9.715971e-09
YJR152W   9.919028e-01 8.097116e-03 3.431312e-08
YKL001C   3.300157e-10 1.000000e+00 1.019661e-08
YKL007W   1.550925e-01 8.392790e-01 5.628464e-03
YKL008C   1.550925e-01 8.392790e-01 5.628464e-03
YKL015W   3.358768e-04 9.996641e-01 7.657455e-09
YKL016C   3.328116e-04 9.996647e-01 2.467149e-06
YKL088W   4.949953e-03 9.946964e-01 3.536098e-04
YKL128C   2.726308e-03 9.971767e-01 9.697962e-05
YKL139W   7.172138e-14 1.000000e+00 7.605603e-11
YKL182W   9.999712e-01 2.880659e-05 7.825981e-14
YKL192C   9.899207e-05 9.999010e-01 4.325322e-13
YKL216W   1.000000e+00 3.350677e-10 7.423103e-22
YKR039W   1.000000e+00 3.828104e-08 2.201140e-23
YKR048C   1.141330e-03 7.164728e-03 9.916939e-01
YKR050W   1.163962e-03 7.219207e-03 9.916168e-01
YKR068C   6.165565e-07 9.704995e-01 2.949987e-02
YKR069W   2.104932e-06 9.838766e-01 1.612131e-02
YLL008W   1.157298e-04 9.998842e-01 5.698160e-08
YLL010C   3.250515e-04 9.996737e-01 1.214953e-06
YLR050C   1.009067e-04 9.998194e-01 7.971815e-05
YLR081W   1.694982e-01 8.304991e-01 2.641075e-06
YLR092W   5.829254e-05 9.999383e-01 3.430630e-06
YLR142W   2.401516e-01 7.598482e-01 2.554116e-07
YLR162W   4.176956e-04 9.756882e-01 2.389406e-02
YLR180W   9.999925e-01 3.039136e-06 4.437394e-06
YLR263W   9.998144e-01 1.855801e-04 2.097075e-15
YLR278C   1.088361e-03 9.988075e-01 1.040998e-04
YLR283W   3.572988e-04 9.996167e-01 2.603647e-05
YLR303W   1.936569e-04 9.997101e-01 9.619578e-05
YLR329W   9.999979e-01 2.111126e-06 2.015656e-12
YLR420W   9.999999e-01 1.321244e-07 5.592449e-17
YLR438W   9.999993e-01 7.046597e-07 5.010970e-11
YML018C   2.055414e-06 1.828769e-01 8.171211e-01
YML051W   9.999991e-01 9.364495e-07 1.692656e-23
YML054C   9.999468e-01 2.895003e-05 2.426794e-05
YML075C   9.999892e-01 1.077265e-05 1.147177e-12
YML121W   5.984585e-07 2.698870e-05 9.999724e-01
YML122C   4.031151e-03 1.632453e-01 8.327236e-01
YML123C   3.703551e-10 2.129837e-13 1.000000e+00
YMR061W   1.580744e-06 9.998704e-01 1.279860e-04
YMR108W   9.999989e-01 1.122982e-06 8.160570e-21
YMR133W   9.999493e-01 5.065223e-05 2.895465e-19
YMR216C   1.654056e-05 9.999834e-01 6.887056e-08
YMR217W   1.625722e-05 9.999837e-01 6.511478e-08
YMR253C   2.443897e-04 7.075776e-02 9.289979e-01
YMR255W   2.443897e-04 7.075776e-02 9.289979e-01
YMR271C   4.077732e-02 2.589018e-01 7.003209e-01
YMR301C   1.113739e-10 1.000000e+00 1.460671e-17
YNL052W   9.979386e-01 2.061402e-03 1.219809e-16
YNL104C   6.580853e-01 3.417396e-01 1.750487e-04
YNL142W   9.999545e-01 4.547324e-05 3.458175e-26
YNL210W   9.999996e-01 3.840202e-07 6.568265e-17
YNL231C   3.816106e-06 1.863202e-03 9.981330e-01
YNL241C   9.999992e-01 7.662977e-07 1.239846e-09
YNL259C   1.954017e-10 1.000000e+00 3.310255e-16
YNL260C   9.325622e-10 1.000000e+00 6.502106e-16
YNL277W   2.319443e-06 9.999968e-01 9.133832e-07
YNR001C   1.000000e+00 2.239206e-09 4.431850e-15
YNR050C   9.997191e-01 1.229988e-04 1.578749e-04
YOL006C   9.934637e-01 6.536323e-03 1.029301e-13
YOL100W   1.406537e-10 9.632992e-01 3.670077e-02
YOR054C   3.627050e-03 3.219463e-01 6.744267e-01
YOR065W   2.872324e-01 6.767507e-01 3.601687e-02
YOR120W   9.969539e-01 3.046095e-03 1.459916e-14
YOR153W   9.996268e-01 3.731684e-04 1.189429e-10
YOR162C   8.620337e-04 3.445706e-03 9.956923e-01
YOR163W   9.068966e-04 6.446585e-04 9.984484e-01
YOR299W   4.566185e-04 9.995434e-01 2.753325e-13
YOR328W   9.997556e-01 2.443618e-04 3.538458e-12
YOR351C   9.999995e-01 4.953091e-07 1.562753e-16
YOR375C   9.999997e-01 2.536903e-07 6.029813e-08
YOR377W   5.101844e-08 2.497826e-02 9.750217e-01
YOR378W   2.965841e-03 9.970298e-01 4.364081e-06
YPL093W   4.099215e-05 9.999590e-01 3.710584e-13
YPL111W   1.000000e+00 8.276749e-09 2.544885e-17
YPL189W   1.345705e-09 9.999997e-01 2.537825e-07
YPL204W   8.481533e-06 9.999915e-01 6.203476e-11
YPL206C   7.900821e-06 9.999921e-01 1.147213e-10
YPL231W   9.980032e-01 1.995537e-03 1.302074e-06
YPL250C   1.622752e-04 9.495929e-01 5.024480e-02
YPR065W   3.364728e-03 9.966353e-01 4.572953e-12
YPR138C   1.000000e+00 7.341281e-11 5.963528e-26
YPR145W   9.996896e-01 3.103968e-04 7.222392e-09
YPR167C   1.414002e-08 1.000000e+00 2.235874e-15
YPR199C   9.065018e-04 9.989993e-01 9.416779e-05
YPR201W   3.816062e-05 9.999535e-01 8.349870e-06

$pc.stepwise.qda$best.pda$call
qda(x = data.training, grouping = labels.training, CV = loo, 
    na.action = na.omit)

$pc.stepwise.qda$best.pda$training.names
  [1] "YAL002W"   "YAL038W"   "YAR064W"   "YAR069C"   "YAR070C"   "YAR071W"  
  [7] "YBL005W"   "YBL030C"   "YBR006W"   "YBR018C"   "YBR020W"   "YBR093C"  
 [13] "YBR115C"   "YBR184W"   "YBR213W"   "YBR222C"   "YBR296C"   "YCL018W"  
 [19] "YCR047C"   "YCR098C"   "YDL131W"   "YDL182W"   "YDL205C"   "YDL210W"  
 [25] "YDR011W"   "YDR023W"   "YDR041W"   "YDR044W"   "YDR054C"   "YDR055W"  
 [31] "YDR169C"   "YDR234W"   "YDR253C"   "YDR254W"   "YDR281C"   "YDR285W"  
 [37] "YDR310C"   "YDR311W"   "YDR381C-A" "YDR382W"   "YDR406W"   "YDR481C"  
 [43] "YDR502C"   "YDR508C"   "YDR510W"   "YEL017C-A" "YEL017W"   "YEL021W"  
 [49] "YEL039C"   "YEL044W"   "YEL046C"   "YER026C"   "YER086W"   "YER091C-A"
 [55] "YER091C"   "YER092W"   "YER125W"   "YER179W"   "YFL023W"   "YFL024C"  
 [61] "YFL031W"   "YFL032W"   "YFL033C"   "YFR030W"   "YGL009C"   "YGL055W"  
 [67] "YGL056C"   "YGL073W"   "YGL125W"   "YGL213C"   "YGR019W"   "YGR044C"  
 [73] "YGR088W"   "YGR121C"   "YGR154C"   "YGR155W"   "YGR157W"   "YGR204W"  
 [79] "YGR233C"   "YGR281W"   "YHL022C"   "YHL036W"   "YHR001W-A" "YHR007C"  
 [85] "YHR008C"   "YHR014W"   "YHR037W"   "YHR046C"   "YHR082C"   "YHR083W"  
 [91] "YHR089C"   "YHR107C"   "YHR136C"   "YHR137W"   "YHR153C"   "YHR168W"  
 [97] "YHR215W"   "YIL015W"   "YIL046W"   "YIL072W"   "YIL092W"   "YIL106W"  
[103] "YIL107C"   "YIL126W"   "YIL127C"   "YIR017C"   "YIR034C"   "YJL012C"  
[109] "YJL106W"   "YJL117W"   "YJL119C"   "YJL129C"   "YJL153C"   "YJL167W"  
[115] "YJL168C"   "YJL186W"   "YJL187C"   "YJL219W"   "YJR010W"   "YJR048W"  
[121] "YJR073C"   "YJR094C"   "YJR095W"   "YJR113C"   "YJR115W"   "YJR137C"  
[127] "YJR138W"   "YJR139C"   "YJR152W"   "YKL001C"   "YKL007W"   "YKL008C"  
[133] "YKL015W"   "YKL016C"   "YKL088W"   "YKL128C"   "YKL139W"   "YKL182W"  
[139] "YKL192C"   "YKL216W"   "YKR039W"   "YKR048C"   "YKR050W"   "YKR068C"  
[145] "YKR069W"   "YLL008W"   "YLL010C"   "YLR050C"   "YLR081W"   "YLR092W"  
[151] "YLR142W"   "YLR162W"   "YLR180W"   "YLR263W"   "YLR278C"   "YLR283W"  
[157] "YLR303W"   "YLR329W"   "YLR420W"   "YLR438W"   "YML018C"   "YML051W"  
[163] "YML054C"   "YML075C"   "YML121W"   "YML122C"   "YML123C"   "YMR061W"  
[169] "YMR108W"   "YMR133W"   "YMR216C"   "YMR217W"   "YMR253C"   "YMR255W"  
[175] "YMR271C"   "YMR301C"   "YNL052W"   "YNL104C"   "YNL142W"   "YNL210W"  
[181] "YNL231C"   "YNL241C"   "YNL259C"   "YNL260C"   "YNL277W"   "YNR001C"  
[187] "YNR050C"   "YOL006C"   "YOL100W"   "YOR054C"   "YOR065W"   "YOR120W"  
[193] "YOR153W"   "YOR162C"   "YOR163W"   "YOR299W"   "YOR328W"   "YOR351C"  
[199] "YOR375C"   "YOR377W"   "YOR378W"   "YPL093W"   "YPL111W"   "YPL189W"  
[205] "YPL204W"   "YPL206C"   "YPL231W"   "YPL250C"   "YPR065W"   "YPR138C"  
[211] "YPR145W"   "YPR167C"   "YPR199C"   "YPR201W"  

$pc.stepwise.qda$best.pda$training.label
  [1] PHO CTL MET PHO PHO PHO CTL CTL CTL CTL CTL PHO CTL CTL MET PHO PHO CTL
 [19] PHO PHO CTL CTL CTL CTL CTL MET PHO CTL PHO PHO PHO CTL MET MET PHO CTL
 [37] PHO PHO MET MET CTL PHO MET MET MET PHO PHO CTL CTL PHO PHO CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET CTL MET MET CTL MET CTL CTL CTL
 [73] CTL CTL MET MET CTL MET PHO CTL CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET PHO PHO PHO CTL PHO PHO CTL MET CTL MET MET MET MET MET MET CTL PHO
[109] CTL PHO PHO MET CTL MET MET MET MET CTL MET CTL CTL CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET CTL MET CTL CTL PHO PHO MET
[145] MET MET MET MET CTL MET CTL MET MET CTL MET MET MET CTL CTL CTL PHO CTL
[163] CTL CTL PHO MET PHO MET CTL CTL MET MET PHO PHO PHO MET CTL CTL CTL CTL
[181] PHO MET MET MET MET CTL CTL CTL MET MET CTL CTL CTL PHO PHO MET CTL CTL
[199] CTL PHO MET MET CTL MET MET MET CTL MET CTL CTL CTL MET MET MET
Levels: CTL MET PHO

$pc.stepwise.qda$best.pda$pda.method
[1] "qda"

$pc.stepwise.qda$best.pda$loo
[1] TRUE

$pc.stepwise.qda$best.pda$validation
[1] "LOO"

$pc.stepwise.qda$best.pda$confusion
      true
object CTL MET PHO
   CTL  71   3   1
   MET   8  86   1
   PHO   1   3  40
attr(,"error")
[1] 0.07943925


$pc.stepwise.qda$best.p
[1] 7

$pc.stepwise.qda$best.vars
[1]  1  2  8  5  3 13  7

$pc.stepwise.qda$best.var.names
[1] "Comp.1"  "Comp.2"  "Comp.8"  "Comp.5"  "Comp.3"  "Comp.13" "Comp.7" 

$pc.stepwise.qda$best.error
[1] 0.07943925

$pc.stepwise.qda$pc.transform
[1] TRUE

$pc.stepwise.qda$var.order
 [1]  1  2  8  5  3 13  7 14 10 11  4 15  6 12  9


$permut.stepwise.qda
$permut.stepwise.qda$confusion.table
        error CTL.CTL CTL.MET CTL.PHO MET.CTL MET.MET MET.PHO PHO.CTL PHO.MET
1   0.5233645      34      46       0      24      68       0      18      24
2   0.5327103      43      34       3      35      50       7      15      20
3   0.5467290      40      39       1      33      57       2      15      27
4   0.5654206      17      63       0      16      76       0       4      38
5   0.5467290      22      57       1      17      75       0      10      32
6   0.5233645      28      51       1      18      71       3       7      32
7   0.5467290      64      15       1      59      32       1      24      17
8   0.5280374      43      32       5      27      55      10      14      25
9   0.5233645      23      57       0      13      79       0       6      36
10  0.5514019      31      49       0      27      65       0      11      31
11  0.5467290      29      51       0      24      68       0      12      30
12  0.5514019      16      64       0      12      80       0       3      39
13  0.5420561      14      62       4      11      77       4       5      30
14  0.5327103      23      54       3      17      72       3       7      30
15  0.5514019      28      52       0      24      68       0       8      34
16  0.5233645      40      37       3      29      58       5      13      25
17  0.5514019      22      58       0      18      74       0       5      37
18  0.5420561      33      36      11      23      61       8      14      24
19  0.5327103      25      54       1      15      75       2      12      30
20  0.5467290      42      38       0      35      55       2      19      23
21  0.5420561      26      54       0      20      72       0      10      32
22  0.5560748      38      38       4      33      57       2      17      25
23  0.5000000      43      32       5      27      58       7      10      26
24  0.5607477      13      67       0      11      81       0       7      35
25  0.5467290      31      49       0      26      66       0      12      30
26  0.5560748      53      27       0      50      42       0      24      18
27  0.5280374      28      50       2      19      73       0      12      30
28  0.5327103      21      57       2      12      79       1      13      29
29  0.5000000      40      39       1      25      67       0      18      24
30  0.5140187      28      49       3      13      71       8       8      29
31  0.5186916      25      48       7      13      74       5      13      25
32  0.4766355      40      36       4      20      66       6      17      19
33  0.5327103      32      48       0      24      68       0      14      28
34  0.5046729      27      47       6      17      70       5      11      22
35  0.4953271      42      32       6      26      60       6      15      21
36  0.5560748      29      46       5      24      66       2      19      23
37  0.5420561      24      56       0      17      72       3      10      30
38  0.5700935      29      51       0      29      63       0      12      30
39  0.5514019      53      24       3      48      43       1      24      18
40  0.5607477      41      33       6      39      45       8      15      19
41  0.5280374      34      35      11      31      53       8       9      19
42  0.5093458      25      55       0      12      80       0      12      30
43  0.5654206      16      58       6      13      72       7       8      29
44  0.5233645      32      48       0      22      70       0      19      23
45  0.4953271      25      52       3      12      77       3      10      26
46  0.5373832      42      37       1      33      57       2      14      28
47  0.5000000      41      33       6      21      62       9       9      29
48  0.5280374      44      32       4      36      54       2      14      25
49  0.5560748      18      62       0      15      77       0       7      35
50  0.5327103      20      58       2      10      79       3       8      33
51  0.5794393      24      56       0      26      66       0      16      26
52  0.5233645      24      56       0      14      78       0       6      36
53  0.4953271      33      47       0      17      75       0       8      34
54  0.5794393      45      35       0      47      45       0      21      21
55  0.5280374      28      52       0      19      73       0       7      35
56  0.5000000      33      47       0      18      74       0      13      29
57  0.5420561      19      58       3      13      79       0      12      30
58  0.5654206      15      62       3      14      78       0      10      32
59  0.5327103      31      46       3      21      68       3      15      26
60  0.5327103      43      29       8      36      48       8      17      16
61  0.5514019      30      50       0      26      66       0      16      26
62  0.5514019      39      31      10      32      43      17      16      12
63  0.5327103      23      57       0      15      77       0      16      26
64  0.5514019      18      62       0      14      78       0      10      32
65  0.5046729      60      20       0      45      46       1      25      17
66  0.5093458      33      47       0      20      72       0      17      25
67  0.5747664      41      30       9      32      49      11      17      24
68  0.5186916      30      50       0      19      73       0      16      26
69  0.5280374      34      43       3      23      67       2      17      25
70  0.5467290      22      58       0      17      75       0      11      31
71  0.5373832      26      50       4      18      70       4      12      27
72  0.5093458      36      44       0      23      69       0      16      26
73  0.5186916      40      40       0      29      63       0      18      24
74  0.5514019      29      46       5      21      66       5      14      27
75  0.5233645      23      57       0      13      79       0       7      35
76  0.5233645      43      37       0      33      59       0      15      27
77  0.5467290      40      40       0      35      57       0      18      24
78  0.5373832      57      23       0      50      42       0      26      16
79  0.5233645      41      28      11      32      56       4      22      15
80  0.5327103      39      35       6      21      61      10      14      28
81  0.5841121      33      33      14      33      45      14      14      17
82  0.5373832      32      48       0      25      67       0      15      27
83  0.5560748      42      27      11      33      45      14      16      18
84  0.5186916      21      59       0      10      82       0       7      35
85  0.4906542      34      46       0      17      75       0      14      28
86  0.5186916      32      44       4      19      69       4      11      29
87  0.5607477      36      43       1      30      58       4      17      25
88  0.5140187      43      37       0      31      61       0      19      23
89  0.5607477      27      47       6      24      61       7      12      24
90  0.5700935       0      80       0       0      92       0       0      42
91  0.5233645      33      47       0      23      69       0      12      30
92  0.5373832      41      39       0      34      58       0      17      25
93  0.5373832      25      48       7      20      68       4       6      30
94  0.5046729      35      45       0      21      71       0      17      25
95  0.5887850       0      80       0       4      88       0       0      42
96  0.5420561      20      60       0      14      78       0       8      34
97  0.5467290      30      50       0      25      67       0      11      31
98  0.5467290      36      29      15      25      44      23      11      14
99  0.5186916      27      53       0      16      76       0      10      32
100 0.5186916      41      39       0      29      62       1      19      23
    PHO.PHO
1         0
2         7
3         0
4         0
5         0
6         3
7         1
8         3
9         0
10        0
11        0
12        0
13        7
14        5
15        0
16        4
17        0
18        4
19        0
20        0
21        0
22        0
23        6
24        0
25        0
26        0
27        0
28        0
29        0
30        5
31        4
32        6
33        0
34        9
35        6
36        0
37        2
38        0
39        0
40        8
41       14
42        0
43        5
44        0
45        6
46        0
47        4
48        3
49        0
50        1
51        0
52        0
53        0
54        0
55        0
56        0
57        0
58        0
59        1
60        9
61        0
62       14
63        0
64        0
65        0
66        0
67        1
68        0
69        0
70        0
71        3
72        0
73        0
74        1
75        0
76        0
77        0
78        0
79        5
80        0
81       11
82        0
83        8
84        0
85        0
86        2
87        0
88        0
89        6
90        0
91        0
92        0
93        6
94        0
95        0
96        0
97        0
98       17
99        0
100       0

$permut.stepwise.qda$errors
    permut.1  permut.2  permut.3  permut.4  permut.5  permut.6  permut.7
1  0.5233645 0.5327103 0.5560748 0.5654206 0.5467290 0.5654206 0.5747664
2  0.5467290 0.5607477 0.5467290 0.5934579 0.5794393 0.5373832 0.6028037
3  0.5607477 0.5654206 0.5747664 0.6214953 0.5794393 0.5233645 0.5467290
4  0.5794393 0.5887850 0.5981308 0.6308411 0.6074766 0.5420561 0.5514019
5  0.5700935 0.5700935 0.5794393 0.6074766 0.6214953 0.5467290 0.5607477
6  0.6028037 0.5327103 0.6028037 0.6028037 0.6028037 0.5280374 0.5981308
7  0.6401869 0.5700935 0.6121495 0.6308411 0.5981308 0.5887850 0.5607477
8  0.6168224 0.5981308 0.6074766 0.6261682 0.6401869 0.6028037 0.5747664
9  0.6214953 0.5887850 0.5981308 0.6401869 0.6728972 0.6074766 0.5887850
10 0.6728972 0.6121495 0.6261682 0.6635514 0.6495327 0.6495327 0.6074766
11 0.6822430 0.6308411 0.6074766 0.6869159 0.6635514 0.6542056 0.5934579
12 0.7056075 0.6728972 0.6495327 0.6308411 0.6775701 0.5934579 0.6121495
13 0.7102804 0.6728972 0.6355140 0.6588785 0.6682243 0.5887850 0.6308411
14 0.6962617 0.6588785 0.6308411 0.6822430 0.6635514 0.5747664 0.6261682
15 0.7009346 0.6542056 0.6635514 0.6869159 0.6915888 0.5607477 0.6355140
    permut.8  permut.9 permut.10 permut.11 permut.12 permut.13 permut.14
1  0.5373832 0.5233645 0.5514019 0.5467290 0.5514019 0.5700935 0.5514019
2  0.5373832 0.5467290 0.5794393 0.5794393 0.6308411 0.5420561 0.5327103
3  0.5420561 0.5607477 0.5700935 0.5607477 0.6028037 0.5654206 0.5420561
4  0.5747664 0.5934579 0.5747664 0.5654206 0.6028037 0.5747664 0.5560748
5  0.5420561 0.6074766 0.6028037 0.5841121 0.6355140 0.6074766 0.5654206
6  0.5420561 0.5981308 0.5747664 0.6028037 0.5981308 0.5887850 0.5700935
7  0.5794393 0.6168224 0.5934579 0.6308411 0.5700935 0.6028037 0.6308411
8  0.6074766 0.6635514 0.6261682 0.6028037 0.6028037 0.6028037 0.6261682
9  0.6028037 0.6448598 0.6168224 0.6448598 0.6542056 0.5887850 0.6308411
10 0.5280374 0.6869159 0.6635514 0.6355140 0.6261682 0.6028037 0.6261682
11 0.5700935 0.6915888 0.6635514 0.6261682 0.6261682 0.6168224 0.6588785
12 0.5420561 0.6728972 0.6401869 0.6495327 0.6401869 0.6635514 0.6074766
13 0.5841121 0.6682243 0.6495327 0.6588785 0.6355140 0.6542056 0.6168224
14 0.5794393 0.6448598 0.7056075 0.6635514 0.6635514 0.6542056 0.5794393
15 0.6261682 0.6682243 0.7009346 0.6775701 0.6542056 0.6682243 0.5700935
   permut.15 permut.16 permut.17 permut.18 permut.19 permut.20 permut.21
1  0.5700935 0.5420561 0.5514019 0.5467290 0.5327103 0.5467290 0.5420561
2  0.5514019 0.5514019 0.5841121 0.5560748 0.5560748 0.5514019 0.5467290
3  0.6214953 0.5700935 0.6168224 0.5887850 0.5514019 0.5654206 0.5654206
4  0.6261682 0.5233645 0.6355140 0.5887850 0.5700935 0.5467290 0.6074766
5  0.6028037 0.5280374 0.6121495 0.6121495 0.5841121 0.5934579 0.6635514
6  0.6355140 0.5420561 0.6074766 0.5467290 0.6401869 0.6355140 0.6355140
7  0.6728972 0.5654206 0.6028037 0.5514019 0.6355140 0.6401869 0.6588785
8  0.6869159 0.5794393 0.6261682 0.5514019 0.6635514 0.6588785 0.6682243
9  0.7242991 0.5981308 0.6074766 0.5420561 0.5887850 0.6588785 0.6448598
10 0.6822430 0.6028037 0.6495327 0.5654206 0.6495327 0.6401869 0.6401869
11 0.6775701 0.6074766 0.6588785 0.5747664 0.6542056 0.6495327 0.6682243
12 0.6775701 0.5841121 0.6355140 0.5794393 0.6261682 0.6401869 0.6401869
13 0.7056075 0.5794393 0.6214953 0.6028037 0.6074766 0.6448598 0.6261682
14 0.6869159 0.5794393 0.6074766 0.6028037 0.6074766 0.6869159 0.6542056
15 0.6728972 0.5934579 0.6682243 0.5981308 0.6168224 0.6542056 0.5981308
   permut.22 permut.23 permut.24 permut.25 permut.26 permut.27 permut.28
1  0.5560748 0.5280374 0.5607477 0.5467290 0.5560748 0.5700935 0.5327103
2  0.5560748 0.5046729 0.5700935 0.5700935 0.5700935 0.5607477 0.5420561
3  0.5747664 0.5000000 0.5841121 0.5934579 0.5700935 0.5280374 0.5327103
4  0.6074766 0.5607477 0.6168224 0.5607477 0.5981308 0.5700935 0.5327103
5  0.6074766 0.5467290 0.5934579 0.5560748 0.6635514 0.5841121 0.5560748
6  0.5700935 0.5420561 0.6121495 0.5887850 0.6542056 0.5934579 0.5654206
7  0.5841121 0.5467290 0.6168224 0.6214953 0.6401869 0.6121495 0.5747664
8  0.5981308 0.5654206 0.6542056 0.6121495 0.6728972 0.6542056 0.6168224
9  0.5794393 0.5700935 0.6588785 0.6261682 0.6869159 0.6168224 0.6308411
10 0.6168224 0.5887850 0.6915888 0.6028037 0.6495327 0.6214953 0.6448598
11 0.6308411 0.5841121 0.6635514 0.6261682 0.6495327 0.6495327 0.6308411
12 0.6074766 0.6168224 0.6635514 0.6074766 0.6355140 0.6588785 0.6401869
13 0.6261682 0.5981308 0.6635514 0.6448598 0.6028037 0.6448598 0.6728972
14 0.5794393 0.5700935 0.6682243 0.6121495 0.5934579 0.6401869 0.6401869
15 0.5887850 0.5514019 0.6355140 0.6401869 0.6261682 0.6635514 0.6308411
   permut.29 permut.30 permut.31 permut.32 permut.33 permut.34 permut.35
1  0.5233645 0.5327103 0.5467290 0.5233645 0.5327103 0.5467290 0.5140187
2  0.5233645 0.5140187 0.5233645 0.4813084 0.5373832 0.5373832 0.5327103
3  0.5000000 0.5373832 0.5186916 0.4766355 0.5607477 0.5046729 0.5233645
4  0.5046729 0.5747664 0.5233645 0.5000000 0.5934579 0.5327103 0.5700935
5  0.5046729 0.5560748 0.5467290 0.5046729 0.6448598 0.5233645 0.5747664
6  0.5327103 0.5467290 0.5654206 0.5514019 0.6401869 0.5514019 0.5233645
7  0.5747664 0.5607477 0.5794393 0.5280374 0.6915888 0.5981308 0.5140187
8  0.5654206 0.5700935 0.6121495 0.5747664 0.6448598 0.6028037 0.4953271
9  0.5794393 0.5560748 0.6168224 0.5747664 0.6308411 0.5887850 0.5186916
10 0.5560748 0.5607477 0.6074766 0.5747664 0.6448598 0.5934579 0.5467290
11 0.5981308 0.5934579 0.6401869 0.6028037 0.6635514 0.6168224 0.5560748
12 0.6308411 0.5887850 0.6588785 0.6168224 0.6682243 0.5887850 0.5794393
13 0.5887850 0.6028037 0.6635514 0.6401869 0.6728972 0.6074766 0.5654206
14 0.5420561 0.6168224 0.6775701 0.6214953 0.6542056 0.6355140 0.5794393
15 0.5607477 0.6261682 0.7009346 0.6355140 0.6915888 0.6355140 0.5794393
   permut.36 permut.37 permut.38 permut.39 permut.40 permut.41 permut.42
1  0.5700935 0.5560748 0.5700935 0.5514019 0.5981308 0.5981308 0.5280374
2  0.5794393 0.5420561 0.6401869 0.5514019 0.5607477 0.5467290 0.5093458
3  0.5887850 0.5747664 0.5794393 0.5887850 0.5887850 0.5514019 0.5140187
4  0.5747664 0.5514019 0.6074766 0.6028037 0.5841121 0.5794393 0.5327103
5  0.5560748 0.5514019 0.6121495 0.5794393 0.5607477 0.5934579 0.5560748
6  0.6028037 0.5794393 0.6261682 0.5700935 0.6074766 0.5794393 0.5887850
7  0.5607477 0.6214953 0.6028037 0.6028037 0.6355140 0.5700935 0.6074766
8  0.5607477 0.5934579 0.6074766 0.6355140 0.6448598 0.5794393 0.5887850
9  0.6028037 0.5841121 0.6308411 0.6401869 0.6915888 0.5747664 0.5747664
10 0.6074766 0.6308411 0.6542056 0.5887850 0.6962617 0.5373832 0.5841121
11 0.5841121 0.6542056 0.6214953 0.5981308 0.7196262 0.5560748 0.5841121
12 0.5747664 0.6728972 0.6588785 0.6028037 0.7149533 0.5280374 0.5514019
13 0.5794393 0.6495327 0.6775701 0.6355140 0.6962617 0.5654206 0.5700935
14 0.5934579 0.6495327 0.6588785 0.6214953 0.7149533 0.5981308 0.5700935
15 0.5934579 0.6682243 0.6495327 0.6495327 0.7196262 0.5794393 0.6214953
   permut.43 permut.44 permut.45 permut.46 permut.47 permut.48 permut.49
1  0.5887850 0.5467290 0.5654206 0.5747664 0.5654206 0.5607477 0.5560748
2  0.5654206 0.5467290 0.4953271 0.6261682 0.5420561 0.5280374 0.5747664
3  0.6214953 0.5233645 0.5280374 0.5700935 0.5560748 0.5280374 0.6028037
4  0.6028037 0.5467290 0.5560748 0.5373832 0.5373832 0.5373832 0.6028037
5  0.6448598 0.5420561 0.5420561 0.5467290 0.5420561 0.5654206 0.6074766
6  0.6028037 0.6074766 0.5514019 0.5700935 0.5000000 0.6074766 0.6635514
7  0.6121495 0.6261682 0.5654206 0.6074766 0.5560748 0.6261682 0.6355140
8  0.6214953 0.5794393 0.5654206 0.6214953 0.5607477 0.6261682 0.6028037
9  0.6728972 0.6261682 0.5841121 0.6308411 0.5887850 0.5887850 0.6542056
10 0.6542056 0.6121495 0.5887850 0.6028037 0.5934579 0.6028037 0.6588785
11 0.6355140 0.6028037 0.5981308 0.6028037 0.5981308 0.6074766 0.6401869
12 0.6448598 0.6448598 0.5981308 0.6121495 0.6168224 0.6028037 0.6168224
13 0.6495327 0.6168224 0.5747664 0.5887850 0.5654206 0.6074766 0.6542056
14 0.6495327 0.6214953 0.5887850 0.6401869 0.5794393 0.6401869 0.6261682
15 0.6308411 0.6308411 0.5887850 0.6308411 0.5887850 0.6308411 0.6401869
   permut.50 permut.51 permut.52 permut.53 permut.54 permut.55 permut.56
1  0.5327103 0.5794393 0.5233645 0.5514019 0.5794393 0.5420561 0.5373832
2  0.5467290 0.6168224 0.5327103 0.4953271 0.6168224 0.5280374 0.5186916
3  0.5327103 0.5981308 0.5514019 0.5140187 0.6214953 0.5373832 0.5000000
4  0.5607477 0.6308411 0.5887850 0.5420561 0.5841121 0.5747664 0.5280374
5  0.5700935 0.6168224 0.6028037 0.5747664 0.6074766 0.6261682 0.5280374
6  0.5467290 0.5887850 0.5560748 0.5934579 0.6308411 0.5981308 0.5467290
7  0.5514019 0.6308411 0.5747664 0.6028037 0.6588785 0.6028037 0.5327103
8  0.5934579 0.6542056 0.5560748 0.6168224 0.6728972 0.6121495 0.5700935
9  0.5981308 0.6588785 0.5841121 0.5981308 0.7102804 0.5794393 0.5747664
10 0.5654206 0.6401869 0.5887850 0.5747664 0.6495327 0.6214953 0.5934579
11 0.5560748 0.6635514 0.6261682 0.5841121 0.6214953 0.5794393 0.5700935
12 0.5467290 0.6261682 0.6261682 0.6121495 0.6682243 0.6028037 0.5981308
13 0.5654206 0.6355140 0.6168224 0.6121495 0.6448598 0.6308411 0.5841121
14 0.5794393 0.6495327 0.6214953 0.6355140 0.6121495 0.6355140 0.5700935
15 0.5747664 0.6168224 0.6588785 0.6355140 0.6261682 0.6214953 0.5887850
   permut.57 permut.58 permut.59 permut.60 permut.61 permut.62 permut.63
1  0.5420561 0.5654206 0.5607477 0.5373832 0.6028037 0.6168224 0.5327103
2  0.5514019 0.6028037 0.5327103 0.5514019 0.5514019 0.5560748 0.5514019
3  0.5514019 0.6074766 0.5327103 0.5373832 0.5747664 0.5981308 0.5794393
4  0.5887850 0.6028037 0.5514019 0.5373832 0.5841121 0.6028037 0.6074766
5  0.6495327 0.6401869 0.5327103 0.5327103 0.5934579 0.5654206 0.6308411
6  0.6728972 0.6682243 0.5420561 0.5794393 0.6214953 0.5934579 0.6168224
7  0.6401869 0.6448598 0.5373832 0.5607477 0.6401869 0.6214953 0.5887850
8  0.6308411 0.6028037 0.5747664 0.6028037 0.6308411 0.5981308 0.5887850
9  0.6355140 0.6214953 0.5654206 0.5420561 0.6448598 0.6401869 0.6074766
10 0.5934579 0.5887850 0.5887850 0.5467290 0.6635514 0.6028037 0.5934579
11 0.6214953 0.5700935 0.5841121 0.5327103 0.6869159 0.5747664 0.6355140
12 0.6168224 0.5887850 0.5747664 0.5607477 0.6962617 0.5514019 0.6214953
13 0.5934579 0.5887850 0.5981308 0.5467290 0.6635514 0.5654206 0.6261682
14 0.6121495 0.5934579 0.5981308 0.5794393 0.6728972 0.5607477 0.6261682
15 0.5607477 0.5981308 0.5794393 0.5841121 0.6588785 0.6028037 0.6448598
   permut.64 permut.65 permut.66 permut.67 permut.68 permut.69 permut.70
1  0.5514019 0.5046729 0.5093458 0.5981308 0.5186916 0.5654206 0.5467290
2  0.5560748 0.5373832 0.5327103 0.5794393 0.5373832 0.5794393 0.5560748
3  0.6121495 0.5514019 0.5233645 0.6588785 0.5233645 0.5514019 0.5467290
4  0.5981308 0.5794393 0.5420561 0.6728972 0.5841121 0.5280374 0.5887850
5  0.6682243 0.5607477 0.5654206 0.6308411 0.5654206 0.5747664 0.6028037
6  0.6682243 0.5934579 0.5981308 0.6261682 0.5794393 0.5841121 0.5934579
7  0.6355140 0.5794393 0.6028037 0.6308411 0.5981308 0.6028037 0.6121495
8  0.6214953 0.5841121 0.6168224 0.5747664 0.6168224 0.5934579 0.6448598
9  0.5887850 0.5887850 0.6355140 0.5794393 0.6168224 0.6074766 0.6308411
10 0.6355140 0.5794393 0.6448598 0.5794393 0.6168224 0.6121495 0.6822430
11 0.6588785 0.5887850 0.6308411 0.5794393 0.6028037 0.6308411 0.6915888
12 0.6401869 0.5841121 0.6308411 0.5887850 0.5934579 0.6308411 0.6822430
13 0.6168224 0.6074766 0.6028037 0.5934579 0.5981308 0.5841121 0.6869159
14 0.6121495 0.6308411 0.6214953 0.6308411 0.6214953 0.5607477 0.6869159
15 0.5887850 0.6401869 0.6401869 0.6074766 0.6074766 0.5420561 0.6775701
   permut.71 permut.72 permut.73 permut.74 permut.75 permut.76 permut.77
1  0.5467290 0.5093458 0.5233645 0.5654206 0.5233645 0.5373832 0.5467290
2  0.5607477 0.5233645 0.5186916 0.5654206 0.5654206 0.5233645 0.5560748
3  0.5514019 0.5420561 0.5373832 0.5841121 0.5700935 0.5467290 0.6214953
4  0.5887850 0.5700935 0.5327103 0.5794393 0.5607477 0.5560748 0.6214953
5  0.5373832 0.6448598 0.5420561 0.6074766 0.5700935 0.5654206 0.5560748
6  0.5560748 0.5887850 0.5700935 0.5514019 0.5747664 0.5607477 0.5560748
7  0.5887850 0.6448598 0.5560748 0.6261682 0.6074766 0.6261682 0.5514019
8  0.5794393 0.6214953 0.6028037 0.6682243 0.5981308 0.6214953 0.5607477
9  0.6121495 0.6542056 0.6168224 0.6728972 0.5560748 0.6495327 0.6214953
10 0.5934579 0.6401869 0.6261682 0.6728972 0.6028037 0.6401869 0.6401869
11 0.6121495 0.6261682 0.6635514 0.6214953 0.5654206 0.6308411 0.6728972
12 0.6355140 0.6728972 0.6401869 0.6401869 0.5700935 0.6355140 0.6822430
13 0.6261682 0.6682243 0.6869159 0.6542056 0.6261682 0.6495327 0.6682243
14 0.6401869 0.6168224 0.6775701 0.6448598 0.6074766 0.6542056 0.6168224
15 0.6214953 0.6121495 0.7056075 0.6448598 0.6214953 0.6728972 0.6121495
   permut.78 permut.79 permut.80 permut.81 permut.82 permut.83 permut.84
1  0.5420561 0.5327103 0.5654206 0.6121495 0.5467290 0.5560748 0.5186916
2  0.5373832 0.5327103 0.5514019 0.5981308 0.5373832 0.5654206 0.5514019
3  0.5467290 0.5514019 0.5467290 0.6074766 0.5560748 0.5560748 0.5887850
4  0.5934579 0.5560748 0.5747664 0.6401869 0.5654206 0.5607477 0.5981308
5  0.5420561 0.5560748 0.5981308 0.6448598 0.5794393 0.5560748 0.5934579
6  0.5794393 0.5887850 0.5514019 0.6261682 0.5747664 0.5981308 0.6168224
7  0.5794393 0.5233645 0.5327103 0.6214953 0.6121495 0.5794393 0.5887850
8  0.6261682 0.5420561 0.5654206 0.5934579 0.6588785 0.5887850 0.6121495
9  0.6121495 0.5514019 0.5607477 0.5841121 0.6915888 0.6074766 0.5934579
10 0.6121495 0.5934579 0.5934579 0.6121495 0.6495327 0.5794393 0.6214953
11 0.6028037 0.6168224 0.5981308 0.6308411 0.6635514 0.5700935 0.6168224
12 0.5747664 0.6308411 0.6121495 0.6682243 0.6401869 0.5841121 0.6355140
13 0.5607477 0.6168224 0.6214953 0.6775701 0.6121495 0.6028037 0.6168224
14 0.5654206 0.6168224 0.5887850 0.6962617 0.6448598 0.5560748 0.6121495
15 0.5747664 0.6261682 0.6214953 0.6635514 0.6495327 0.6028037 0.6074766
   permut.85 permut.86 permut.87 permut.88 permut.89 permut.90 permut.91
1  0.5280374 0.5233645 0.5747664 0.5514019 0.5654206 0.5700935 0.5654206
2  0.4906542 0.5186916 0.5607477 0.5140187 0.5700935 0.6448598 0.5467290
3  0.5000000 0.5280374 0.5841121 0.5467290 0.6028037 0.6355140 0.5327103
4  0.4953271 0.5607477 0.5841121 0.5514019 0.6028037 0.6728972 0.5233645
5  0.5093458 0.6074766 0.6915888 0.5607477 0.6121495 0.6121495 0.5420561
6  0.5186916 0.6214953 0.6728972 0.5887850 0.6121495 0.6542056 0.5327103
7  0.5607477 0.5934579 0.6542056 0.5934579 0.6261682 0.6635514 0.5654206
8  0.5280374 0.6028037 0.6261682 0.6121495 0.5607477 0.6962617 0.5654206
9  0.5467290 0.6168224 0.6028037 0.6355140 0.5934579 0.7056075 0.5841121
10 0.5841121 0.6355140 0.6448598 0.6495327 0.6168224 0.7102804 0.5887850
11 0.6028037 0.6028037 0.6635514 0.6401869 0.6121495 0.7289720 0.5887850
12 0.6028037 0.6261682 0.6495327 0.6401869 0.5981308 0.7009346 0.6214953
13 0.5887850 0.6448598 0.6822430 0.6401869 0.5934579 0.6869159 0.5934579
14 0.5934579 0.6588785 0.6822430 0.6588785 0.5981308 0.6682243 0.5887850
15 0.5887850 0.6355140 0.6495327 0.6588785 0.6448598 0.7056075 0.5934579
   permut.92 permut.93 permut.94 permut.95 permut.96 permut.97 permut.98
1  0.5373832 0.5607477 0.5233645 0.5887850 0.5607477 0.5514019 0.5560748
2  0.5700935 0.5560748 0.5046729 0.6168224 0.5420561 0.5467290 0.5700935
3  0.5747664 0.5373832 0.5420561 0.7242991 0.5607477 0.5654206 0.5654206
4  0.5887850 0.5560748 0.5467290 0.6261682 0.5981308 0.5747664 0.5794393
5  0.5794393 0.5887850 0.5700935 0.6121495 0.6355140 0.6074766 0.5887850
6  0.5794393 0.6214953 0.6074766 0.6682243 0.6214953 0.6448598 0.5700935
7  0.6028037 0.5981308 0.6028037 0.6682243 0.5841121 0.6355140 0.5467290
8  0.6074766 0.6355140 0.6168224 0.7102804 0.5794393 0.6448598 0.5654206
9  0.6028037 0.6588785 0.6542056 0.7102804 0.6168224 0.5934579 0.5607477
10 0.6214953 0.6355140 0.6028037 0.7289720 0.5981308 0.5934579 0.5514019
11 0.6121495 0.6261682 0.5841121 0.7429907 0.6401869 0.6308411 0.5654206
12 0.6028037 0.5794393 0.6074766 0.6869159 0.6448598 0.6074766 0.5654206
13 0.5794393 0.6261682 0.5841121 0.7009346 0.6728972 0.6448598 0.5887850
14 0.5794393 0.6401869 0.6214953 0.7009346 0.6635514 0.6495327 0.6074766
15 0.5934579 0.6028037 0.6355140 0.6355140 0.6635514 0.6635514 0.5747664
   permut.99 permut.100  err.mean     err.sd   err.sterr
1  0.5186916  0.5327103 0.5506075 0.02283508 0.002283508
2  0.5654206  0.5467290 0.5532710 0.03111723 0.003111723
3  0.5887850  0.5186916 0.5623364 0.03784770 0.003784770
4  0.5560748  0.5233645 0.5745327 0.03408317 0.003408317
5  0.5981308  0.5420561 0.5835047 0.03860607 0.003860607
6  0.6355140  0.5467290 0.5907009 0.03810832 0.003810832
7  0.6355140  0.5794393 0.6002336 0.03639285 0.003639285
8  0.6401869  0.5934579 0.6084112 0.03701556 0.003701556
9  0.6355140  0.6261682 0.6148131 0.04036891 0.004036891
10 0.6214953  0.6542056 0.6186916 0.03829254 0.003829254
11 0.6448598  0.6635514 0.6240187 0.03993586 0.003993586
12 0.6401869  0.7102804 0.6249065 0.03934290 0.003934290
13 0.6775701  0.7383178 0.6273832 0.03977093 0.003977093
14 0.6728972  0.7336449 0.6279907 0.04012031 0.004012031
15 0.6822430  0.7476636 0.6311682 0.04059774 0.004059774

$permut.stepwise.qda$best.p
[1] 3

$permut.stepwise.qda$best.error
[1] 0.5186916

$permut.stepwise.qda$best.pda
$permut.stepwise.qda$best.pda$class
  [1] MET MET MET MET MET MET CTL CTL CTL MET MET MET CTL CTL MET CTL MET CTL
 [19] CTL MET CTL MET MET MET CTL MET MET CTL MET MET MET MET MET MET CTL CTL
 [37] MET MET CTL CTL MET MET CTL CTL CTL MET MET CTL CTL CTL CTL MET CTL MET
 [55] MET MET CTL MET MET MET CTL MET CTL CTL MET MET MET MET CTL MET MET MET
 [73] MET MET CTL CTL MET CTL MET MET MET CTL MET MET CTL MET MET MET CTL CTL
 [91] CTL CTL CTL CTL MET MET MET CTL CTL CTL CTL MET MET CTL CTL MET MET MET
[109] MET MET MET MET CTL CTL CTL CTL CTL MET CTL CTL MET MET MET MET CTL MET
[127] MET CTL MET CTL CTL CTL CTL CTL CTL CTL MET CTL CTL CTL MET MET MET MET
[145] MET CTL CTL MET CTL CTL MET MET MET PHO MET MET MET CTL CTL MET MET MET
[163] MET MET CTL MET MET MET CTL MET MET MET CTL CTL MET MET CTL CTL MET MET
[181] MET CTL MET MET CTL CTL MET MET MET CTL CTL MET MET MET MET CTL MET CTL
[199] MET MET CTL MET MET MET CTL CTL CTL CTL MET CTL MET MET MET MET
Levels: CTL MET PHO

$permut.stepwise.qda$best.pda$posterior
                 CTL        MET         PHO
YAL002W   0.33950859 0.47138661 0.189104798
YAL038W   0.40901477 0.47728266 0.113702572
YAR064W   0.30584687 0.51428517 0.179867956
YAR069C   0.04708910 0.91084080 0.042070108
YAR070C   0.15983897 0.78876021 0.051400821
YAR071W   0.16622564 0.82634066 0.007433698
YBL005W   0.40605965 0.40426328 0.189677073
YBL030C   0.38724282 0.36840062 0.244356553
YBR006W   0.41444846 0.38370580 0.201845737
YBR018C   0.33909716 0.41077000 0.250132835
YBR020W   0.43472270 0.43922164 0.126055660
YBR093C   0.23300399 0.60769034 0.159305666
YBR115C   0.38955114 0.37332393 0.237124925
YBR184W   0.44655980 0.36339957 0.190040631
YBR213W   0.34230049 0.38930131 0.268398203
YBR222C   0.40313214 0.26704755 0.329820316
YBR296C   0.09423051 0.84759929 0.058170202
YCL018W   0.40589789 0.35828061 0.235821500
YCR047C   0.46175650 0.37641559 0.161827915
YCR098C   0.30365426 0.52698593 0.169359804
YDL131W   0.42540097 0.38171732 0.192881707
YDL182W   0.34931187 0.40315660 0.247531530
YDL205C   0.30701048 0.41814815 0.274841370
YDL210W   0.38051845 0.38559213 0.233889422
YDR011W   0.43869333 0.35673770 0.204568962
YDR023W   0.32042645 0.48678390 0.192789652
YDR041W   0.27742624 0.66103335 0.061540408
YDR044W   0.44771434 0.34309521 0.209190450
YDR054C   0.37754024 0.54070011 0.081759652
YDR055W   0.37602898 0.51839485 0.105576167
YDR169C   0.29776622 0.65212173 0.050112047
YDR234W   0.37108504 0.38413542 0.244779549
YDR253C   0.31183417 0.48081550 0.207350329
YDR254W   0.34718028 0.41788458 0.234935133
YDR281C   0.44024180 0.41397490 0.145783300
YDR285W   0.40836886 0.36277394 0.228857200
YDR310C   0.12461930 0.77773621 0.097644498
YDR311W   0.21853710 0.67721881 0.104244098
YDR381C-A 0.48917362 0.31417954 0.196646845
YDR382W   0.49351471 0.34180684 0.164678460
YDR406W   0.37136193 0.37419630 0.254441772
YDR481C   0.30340207 0.52586427 0.170733664
YDR502C   0.41926202 0.39899570 0.181742280
YDR508C   0.49427066 0.25697879 0.248750552
YDR510W   0.51608965 0.25855261 0.225357739
YEL017C-A 0.33614276 0.58881572 0.075041517
YEL017W   0.32735515 0.59894224 0.073702604
YEL021W   0.45467091 0.36128856 0.184040523
YEL039C   0.38715284 0.37348014 0.239367022
YEL044W   0.45386604 0.34273461 0.203399348
YEL046C   0.45003858 0.35143705 0.198524371
YER026C   0.34348699 0.39042759 0.266085415
YER086W   0.41956093 0.40405327 0.176385802
YER091C-A 0.32392043 0.39690565 0.279173915
YER091C   0.34842011 0.56703561 0.084544278
YER092W   0.34842011 0.56703561 0.084544278
YER125W   0.48035513 0.20347543 0.316169445
YER179W   0.28529713 0.43728599 0.277416880
YFL023W   0.36829002 0.39731698 0.234393000
YFL024C   0.34254510 0.40937694 0.248077965
YFL031W   0.37261005 0.37141412 0.255975832
YFL032W   0.37064474 0.37215180 0.257203462
YFL033C   0.37959579 0.36465002 0.255754192
YFR030W   0.45404083 0.27511243 0.270846739
YGL009C   0.26096252 0.37406295 0.364974527
YGL055W   0.36598467 0.42541530 0.208600034
YGL056C   0.35880027 0.43259173 0.208608000
YGL073W   0.35757501 0.43480962 0.207615369
YGL125W   0.69940950 0.11882979 0.181760714
YGL213C   0.32021482 0.37291432 0.306870866
YGR019W   0.36184947 0.39672552 0.241425013
YGR044C   0.22916997 0.69655889 0.074271137
YGR088W   0.27040751 0.49878507 0.230807417
YGR121C   0.37549189 0.38033813 0.244169983
YGR154C   0.59225781 0.26085114 0.146891053
YGR155W   0.58622651 0.23173228 0.182041215
YGR157W   0.35884278 0.39038965 0.250767571
YGR204W   0.39289703 0.37427310 0.232829873
YGR233C   0.27393329 0.66114638 0.064920328
YGR281W   0.25757236 0.49397941 0.248448229
YHL022C   0.35930378 0.38549560 0.255200623
YHL036W   0.61452593 0.20901669 0.176457379
YHR001W-A 0.30636621 0.45057060 0.243063199
YHR007C   0.41693598 0.44826369 0.134800332
YHR008C   0.40522111 0.35731833 0.237460555
YHR014W   0.33079207 0.38063557 0.288572361
YHR037W   0.31086462 0.41367480 0.275460584
YHR046C   0.41095290 0.41629669 0.172750412
YHR082C   0.38172937 0.36736983 0.250900801
YHR083W   0.46268436 0.28190217 0.255413474
YHR089C   0.42947716 0.29976408 0.270758756
YHR107C   0.54053223 0.31994377 0.139524002
YHR136C   0.94527885 0.04264589 0.012075252
YHR137W   0.79036194 0.19162490 0.018013157
YHR153C   0.34872811 0.40201909 0.249252802
YHR168W   0.26446076 0.58902885 0.146510394
YHR215W   0.05041529 0.83072464 0.118860071
YIL015W   0.38574190 0.37279990 0.241458200
YIL046W   0.51086124 0.30270819 0.186430563
YIL072W   0.40056599 0.36617373 0.233260273
YIL092W   0.37851217 0.36940156 0.252086265
YIL106W   0.30582679 0.53538011 0.158793102
YIL107C   0.33430347 0.58081337 0.084883159
YIL126W   0.48834553 0.26104494 0.250609526
YIL127C   0.48549762 0.26389488 0.250607507
YIR017C   0.38996548 0.41131484 0.198719679
YIR034C   0.33309118 0.49129447 0.175614350
YJL012C   0.20538723 0.73666346 0.057949316
YJL106W   0.25752631 0.43970762 0.302766067
YJL117W   0.27872465 0.59749444 0.123780901
YJL119C   0.27472019 0.64829422 0.076985593
YJL129C   0.30537752 0.49078844 0.203834040
YJL153C   0.38374384 0.36489971 0.251356452
YJL167W   0.43302230 0.40106219 0.165915505
YJL168C   0.44062968 0.40190388 0.157466437
YJL186W   0.38901316 0.35954105 0.251445793
YJL187C   0.46890703 0.25478441 0.276308553
YJL219W   0.32439604 0.47613260 0.199471354
YJR010W   0.41950753 0.33723989 0.243252576
YJR048W   0.39882445 0.35956497 0.241610578
YJR073C   0.42877380 0.43167983 0.139546364
YJR094C   0.36921780 0.39227452 0.238507684
YJR095W   0.21881706 0.54114554 0.240037391
YJR113C   0.37464700 0.38493767 0.240415330
YJR115W   0.38394430 0.37579823 0.240257470
YJR137C   0.28484725 0.47528458 0.239868172
YJR138W   0.24046736 0.47006772 0.289464915
YJR139C   0.45250198 0.31943567 0.228062353
YJR152W   0.37544833 0.38040646 0.244145210
YKL001C   0.39859247 0.39315409 0.208253440
YKL007W   0.43701018 0.32568932 0.237300497
YKL008C   0.43701018 0.32568932 0.237300497
YKL015W   0.52159828 0.29773891 0.180662809
YKL016C   0.50345026 0.29606486 0.200484876
YKL088W   0.45794106 0.36875777 0.173301171
YKL128C   0.55269075 0.21157319 0.235736056
YKL139W   0.38025890 0.47858734 0.141153752
YKL182W   0.44287232 0.35878358 0.198344093
YKL192C   0.48698612 0.25989255 0.253121332
YKL216W   0.45197579 0.40530871 0.142715499
YKR039W   0.34752670 0.42048489 0.231988410
YKR048C   0.17282769 0.76320898 0.063963331
YKR050W   0.25069569 0.68334571 0.065958606
YKR068C   0.30401955 0.52291391 0.173066540
YKR069W   0.32818687 0.49928374 0.172529390
YLL008W   0.70248776 0.20797498 0.089537259
YLL010C   0.69551688 0.15544239 0.149040730
YLR050C   0.29012572 0.49668276 0.213191523
YLR081W   0.39763934 0.34318667 0.259173992
YLR092W   0.61584115 0.26065564 0.123503208
YLR142W   0.34491590 0.44423673 0.210847367
YLR162W   0.33794643 0.55133638 0.110717189
YLR180W   0.38188497 0.38785181 0.230263222
YLR263W   0.25878392 0.36992652 0.371289560
YLR278C   0.35447510 0.50527327 0.140251635
YLR283W   0.30846430 0.54635421 0.145181492
YLR303W   0.36150606 0.43117709 0.207316848
YLR329W   0.40212486 0.39041137 0.207463769
YLR420W   0.42684802 0.34484985 0.228302128
YLR438W   0.35458073 0.42973373 0.215685542
YML018C   0.23319871 0.54360106 0.223200227
YML051W   0.32120038 0.43618706 0.242612567
YML054C   0.29090798 0.65749743 0.051594594
YML075C   0.29831606 0.41631489 0.285369042
YML121W   0.52205263 0.26908573 0.208861639
YML122C   0.38321542 0.41045756 0.206327026
YML123C   0.22191250 0.56845540 0.209632103
YMR061W   0.29737768 0.56527892 0.137343407
YMR108W   0.45598187 0.41437116 0.129646971
YMR133W   0.36763330 0.39991644 0.232450259
YMR216C   0.25230105 0.50778588 0.239913070
YMR217W   0.23154594 0.52796010 0.240493963
YMR253C   0.49346945 0.37938698 0.127143571
YMR255W   0.49346945 0.37938698 0.127143571
YMR271C   0.35715681 0.51327386 0.129569335
YMR301C   0.35712238 0.39897351 0.243904112
YNL052W   0.37865478 0.36739558 0.253949633
YNL104C   0.48916207 0.36535394 0.145483992
YNL142W   0.28383849 0.50928078 0.206880730
YNL210W   0.28312900 0.43790168 0.278969323
YNL231C   0.17216216 0.71365534 0.114182491
YNL241C   0.39033478 0.35414967 0.255515552
YNL259C   0.32502102 0.41084221 0.264136775
YNL260C   0.28232629 0.46895938 0.248714329
YNL277W   0.55536383 0.23393444 0.210701732
YNR001C   0.36166120 0.35847565 0.279863147
YNR050C   0.27339790 0.54194436 0.184657746
YOL006C   0.33050958 0.43047451 0.239015904
YOL100W   0.16970994 0.69913514 0.131154916
YOR054C   0.45225597 0.38831341 0.159430621
YOR065W   0.48330609 0.25506406 0.261629854
YOR120W   0.29566817 0.43147040 0.272861435
YOR153W   0.34888245 0.40392353 0.247194015
YOR162C   0.37615910 0.55251486 0.071326042
YOR163W   0.41934213 0.50949834 0.071159530
YOR299W   0.38183116 0.37273221 0.245436631
YOR328W   0.33458617 0.43084251 0.234571320
YOR351C   0.44653499 0.39218179 0.161283225
YOR375C   0.26846461 0.58394733 0.147588062
YOR377W   0.28823484 0.60683298 0.104932181
YOR378W   0.38385746 0.36854521 0.247597337
YPL093W   0.37661659 0.40207701 0.221306397
YPL111W   0.35953060 0.37019875 0.270270647
YPL189W   0.25516195 0.50426146 0.240576589
YPL204W   0.43922582 0.36468757 0.196086616
YPL206C   0.45696461 0.34706304 0.195972347
YPL231W   0.43833521 0.40313330 0.158531489
YPL250C   0.72388867 0.15674096 0.119370375
YPR065W   0.32036627 0.45791477 0.221718957
YPR138C   0.40473042 0.36335052 0.231919063
YPR145W   0.36611365 0.39060040 0.243285947
YPR167C   0.27514881 0.47100631 0.253844881
YPR199C   0.35221102 0.44684231 0.200946675
YPR201W   0.34446406 0.44612759 0.209408348

$permut.stepwise.qda$best.pda$call
qda(x = data.training, grouping = labels.training, CV = loo, 
    na.action = na.omit)

$permut.stepwise.qda$best.pda$training.label
  [1] MET CTL MET CTL MET PHO CTL PHO CTL MET PHO MET CTL CTL MET CTL CTL PHO
 [19] PHO MET PHO MET MET PHO MET MET PHO MET CTL MET MET PHO MET MET CTL CTL
 [37] CTL MET MET PHO MET MET CTL CTL PHO MET MET PHO CTL MET CTL CTL MET CTL
 [55] MET MET CTL PHO PHO CTL CTL MET MET MET CTL MET CTL CTL MET MET PHO MET
 [73] PHO CTL PHO MET MET CTL CTL PHO CTL PHO MET MET MET MET MET CTL CTL CTL
 [91] CTL PHO MET CTL CTL CTL CTL CTL CTL CTL MET MET PHO CTL PHO MET MET CTL
[109] MET MET PHO PHO CTL MET CTL CTL MET CTL PHO MET CTL PHO MET CTL MET CTL
[127] MET MET MET PHO PHO PHO PHO CTL PHO CTL MET MET CTL PHO PHO CTL MET CTL
[145] MET CTL CTL MET MET MET MET MET MET MET PHO CTL MET CTL CTL MET CTL CTL
[163] PHO CTL MET PHO MET MET CTL MET MET CTL MET MET MET CTL MET CTL CTL CTL
[181] MET MET MET MET CTL CTL CTL PHO PHO MET CTL PHO MET CTL MET CTL MET MET
[199] CTL PHO PHO MET MET MET CTL MET MET CTL MET CTL CTL CTL PHO CTL
Levels: CTL MET PHO

$permut.stepwise.qda$best.pda$pda.method
[1] "qda"

$permut.stepwise.qda$best.pda$loo
[1] TRUE

$permut.stepwise.qda$best.pda$validation
[1] "LOO"

$permut.stepwise.qda$best.pda$confusion
      true
object CTL MET PHO
   CTL  41  29  19
   MET  39  62  23
   PHO   0   1   0
attr(,"error")
[1] 0.5186916



$permut.pc.stepwise.qda
$permut.pc.stepwise.qda$confusion.table
        error CTL.CTL CTL.MET CTL.PHO MET.CTL MET.MET MET.PHO PHO.CTL PHO.MET
1   0.4859813      54      26       0      36      56       0      26      16
2   0.5140187      32      48       0      20      72       0       9      33
3   0.5373832      34      46       0      27      65       0      13      29
4   0.5420561      20      60       0      14      78       0       6      36
5   0.5327103      40      40       0      32      60       0      16      26
6   0.5046729      54      25       1      40      52       0      22      20
7   0.5046729      48      26       6      39      52       1      18      18
8   0.5420561      15      65       0       9      83       0       3      39
9   0.5514019      17      61       2      13      79       0      12      30
10  0.5467290      28      52       0      23      69       0      13      29
11  0.5607477      21      59       0      19      73       0      11      31
12  0.5140187      37      43       0      24      67       1      18      24
13  0.5373832      32      48       0      25      67       0      16      26
14  0.5280374      27      53       0      18      74       0       6      36
15  0.5420561      44      36       0      36      54       2      20      22
16  0.5373832      44      36       0      35      55       2      10      32
17  0.5794393      45      35       0      47      45       0      24      18
18  0.5467290      32      41       7      24      62       6      19      20
19  0.5420561      37      39       4      28      61       3      11      31
20  0.5327103      37      39       4      33      55       4      15      19
21  0.4719626      36      43       1      17      73       2      10      28
22  0.5607477      17      63       0      15      77       0       6      36
23  0.5140187      38      37       5      30      55       7      11      20
24  0.5000000      28      51       1      13      79       0      11      31
25  0.5373832      25      54       1      16      74       2      11      31
26  0.5420561      22      56       2      16      76       0      12      30
27  0.5373832      21      59       0      14      78       0       9      33
28  0.5327103      45      25      10      25      50      17      17      20
29  0.5280374      60      20       0      51      41       0      25      17
30  0.5514019      18      62       0      14      78       0       8      34
31  0.5560748      24      56       0      21      71       0      14      28
32  0.5140187      29      48       3      18      70       4      11      26
33  0.5233645      35      45       0      24      67       1      16      26
34  0.5233645      21      58       1      10      81       1       8      34
35  0.5514019      28      49       3      21      66       5      14      26
36  0.5467290      46      30       4      39      48       5      24      15
37  0.5467290      18      62       0      13      79       0       9      33
38  0.5420561      47      33       0      41      51       0      24      18
39  0.4953271      41      39       0      25      67       0      15      27
40  0.5327103      40      40       0      32      60       0      13      29
41  0.5280374      47      33       0      36      54       2      23      19
42  0.5327103      29      51       0      22      70       0      12      29
43  0.5000000      36      44       0      21      71       0       9      33
44  0.5093458      40      39       1      26      65       1      19      23
45  0.5327103      28      52       0      20      72       0       6      36
46  0.5280374      23      54       3      14      78       0      10      32
47  0.4953271      31      48       1      15      74       3      10      29
48  0.5140187      35      39       6      24      67       1      18      22
49  0.5000000      41      39       0      26      66       0      19      23
50  0.5514019      22      58       0      18      74       0      10      32
51  0.5514019      33      47       0      29      63       0      13      29
52  0.5186916      29      51       0      18      74       0      20      22
53  0.5560748      24      56       0      21      71       0      11      31
54  0.5280374      24      56       0      15      77       0       5      37
55  0.5093458      35      45       0      22      70       0      15      27
56  0.5514019      31      49       0      27      65       0      13      29
57  0.5841121      17      61       2      20      72       0      14      28
58  0.5000000      29      50       1      15      76       1       7      33
59  0.4906542      27      46       7      13      77       2      11      26
60  0.5373832      41      28      11      31      49      12      15      18
61  0.5327103      24      56       0      16      76       0      11      31
62  0.5747664      16      64       0      17      75       0       8      34
63  0.5420561      42      38       0      36      56       0      16      26
64  0.5420561      29      51       0      22      67       3      12      28
65  0.5140187      37      43       0      25      67       0      15      27
66  0.5327103      40      32       8      29      53      10      15      20
67  0.5233645      32      41       7      29      63       0      19      16
68  0.5280374      28      48       4      20      69       3      13      25
69  0.5233645      26      54       0      16      76       0      14      28
70  0.5373832      24      55       1      17      75       0      10      32
71  0.5233645      28      48       4      21      69       2       7      30
72  0.5233645      40      39       1      27      62       3      11      31
73  0.5373832      36      43       1      29      63       0      23      19
74  0.5327103      36      40       4      23      60       9      10      28
75  0.5560748      36      39       5      31      53       8      14      22
76  0.5186916      32      48       0      21      71       0      13      29
77  0.5280374      28      52       0      19      73       0      11      31
78  0.5140187      36      38       6      23      64       5      14      24
79  0.5373832      36      40       4      29      60       3      16      23
80  0.5420561      27      53       0      21      71       0       9      33
81  0.5233645      37      41       2      26      63       3      15      25
82  0.5280374      28      52       0      19      72       1      11      30
83  0.5420561      37      42       1      31      61       0      18      24
84  0.5186916      35      42       3      19      67       6      14      27
85  0.5046729      26      52       2      13      78       1       8      32
86  0.5560748      18      61       1      14      77       1      10      32
87  0.5327103      27      51       2      18      71       3      10      30
88  0.5327103      21      58       1      13      79       0      11      31
89  0.5514019      22      57       1      18      74       0      10      32
90  0.5514019      19      61       0      15      77       0       9      33
91  0.5373832      46      31       3      38      49       5      18      20
92  0.5560748      34      46       0      31      61       0      10      32
93  0.5373832      27      53       0      20      72       0      15      27
94  0.5280374      17      63       0       8      84       0      10      32
95  0.5560748      45      30       5      41      47       4      17      22
96  0.5467290      43      37       0      35      54       3      22      20
97  0.5373832      35      41       4      25      62       5       8      32
98  0.5233645      35      45       0      24      67       1      16      26
99  0.5560748      42      38       0      37      53       2      22      20
100 0.5654206      50      30       0      48      43       1      18      24
    PHO.PHO
1         0
2         0
3         0
4         0
5         0
6         0
7         6
8         0
9         0
10        0
11        0
12        0
13        0
14        0
15        0
16        0
17        0
18        3
19        0
20        8
21        4
22        0
23       11
24        0
25        0
26        0
27        0
28        5
29        0
30        0
31        0
32        5
33        0
34        0
35        2
36        3
37        0
38        0
39        0
40        0
41        0
42        1
43        0
44        0
45        0
46        0
47        3
48        2
49        0
50        0
51        0
52        0
53        0
54        0
55        0
56        0
57        0
58        2
59        5
60        9
61        0
62        0
63        0
64        2
65        0
66        7
67        7
68        4
69        0
70        0
71        5
72        0
73        0
74        4
75        6
76        0
77        0
78        4
79        3
80        0
81        2
82        1
83        0
84        1
85        2
86        0
87        2
88        0
89        0
90        0
91        4
92        0
93        0
94        0
95        3
96        0
97        2
98        0
99        0
100       0

$permut.pc.stepwise.qda$errors
    permut.1  permut.2  permut.3  permut.4  permut.5  permut.6  permut.7
1  0.5327103 0.5373832 0.5373832 0.5420561 0.5654206 0.5373832 0.5420561
2  0.5000000 0.5140187 0.5747664 0.5607477 0.5514019 0.5046729 0.5607477
3  0.4859813 0.5373832 0.5841121 0.5981308 0.5327103 0.5373832 0.5794393
4  0.5373832 0.5420561 0.6028037 0.6168224 0.5607477 0.5467290 0.5841121
5  0.5700935 0.5700935 0.6401869 0.6168224 0.6074766 0.5841121 0.5560748
6  0.5794393 0.5934579 0.6168224 0.6355140 0.5981308 0.5747664 0.5373832
7  0.5514019 0.6074766 0.6401869 0.6401869 0.6355140 0.5747664 0.5046729
8  0.5560748 0.6074766 0.6495327 0.6542056 0.6588785 0.5467290 0.5327103
9  0.5467290 0.6448598 0.6588785 0.7102804 0.6822430 0.5467290 0.5420561
10 0.5934579 0.6355140 0.6682243 0.7429907 0.6915888 0.5560748 0.5887850
11 0.5934579 0.6401869 0.6588785 0.7616822 0.6915888 0.5654206 0.5794393
12 0.6308411 0.6588785 0.6448598 0.7056075 0.7056075 0.5654206 0.5514019
13 0.6355140 0.6448598 0.6822430 0.6869159 0.7196262 0.5373832 0.5560748
14 0.6495327 0.6214953 0.7009346 0.6775701 0.7242991 0.5327103 0.5514019
15 0.6401869 0.6355140 0.6869159 0.7242991 0.6775701 0.5327103 0.5607477
    permut.8  permut.9 permut.10 permut.11 permut.12 permut.13 permut.14
1  0.5420561 0.5514019 0.5467290 0.5607477 0.5233645 0.5373832 0.5280374
2  0.5794393 0.5607477 0.5467290 0.5794393 0.5233645 0.5607477 0.5280374
3  0.6074766 0.5700935 0.5841121 0.5794393 0.5140187 0.5514019 0.5607477
4  0.6355140 0.5607477 0.5794393 0.6168224 0.5607477 0.5560748 0.5794393
5  0.6261682 0.5747664 0.5560748 0.6588785 0.5841121 0.5654206 0.6028037
6  0.6635514 0.5841121 0.5700935 0.6355140 0.5747664 0.6121495 0.5981308
7  0.6401869 0.6448598 0.5934579 0.6542056 0.5981308 0.6308411 0.6355140
8  0.6028037 0.6682243 0.5560748 0.7196262 0.5841121 0.6401869 0.6355140
9  0.6074766 0.6401869 0.5560748 0.6962617 0.5607477 0.6495327 0.6775701
10 0.6308411 0.6542056 0.5841121 0.6495327 0.5607477 0.6308411 0.7196262
11 0.6495327 0.6635514 0.5794393 0.6588785 0.5700935 0.5841121 0.6728972
12 0.6588785 0.6588785 0.6028037 0.6355140 0.5654206 0.6028037 0.6775701
13 0.6495327 0.6588785 0.6495327 0.6588785 0.5794393 0.6121495 0.6775701
14 0.6775701 0.6728972 0.6214953 0.6168224 0.5794393 0.6074766 0.6308411
15 0.6495327 0.6635514 0.6495327 0.6261682 0.5794393 0.5934579 0.6401869
   permut.15 permut.16 permut.17 permut.18 permut.19 permut.20 permut.21
1  0.5560748 0.5467290 0.5794393 0.5560748 0.5560748 0.5373832 0.5140187
2  0.5420561 0.5373832 0.5887850 0.5887850 0.5654206 0.5514019 0.4859813
3  0.5607477 0.5373832 0.6355140 0.5981308 0.5887850 0.5373832 0.4719626
4  0.5560748 0.5794393 0.6308411 0.5934579 0.5654206 0.5794393 0.4859813
5  0.6168224 0.5560748 0.6355140 0.6355140 0.5420561 0.5607477 0.5000000
6  0.5934579 0.5560748 0.6168224 0.5934579 0.5934579 0.5420561 0.5280374
7  0.6168224 0.5981308 0.6261682 0.5467290 0.6261682 0.5327103 0.5327103
8  0.6448598 0.6168224 0.6635514 0.5700935 0.6682243 0.5700935 0.5327103
9  0.6495327 0.6448598 0.6775701 0.6028037 0.6635514 0.5841121 0.5373832
10 0.6635514 0.6775701 0.6495327 0.6121495 0.6635514 0.5794393 0.5887850
11 0.6401869 0.6682243 0.6869159 0.6168224 0.6542056 0.5981308 0.5140187
12 0.6355140 0.6775701 0.6261682 0.6214953 0.6355140 0.6028037 0.5560748
13 0.6355140 0.6915888 0.6822430 0.6261682 0.6588785 0.5560748 0.5560748
14 0.6448598 0.6869159 0.6635514 0.6121495 0.6915888 0.5560748 0.5420561
15 0.6401869 0.6915888 0.6214953 0.6542056 0.6355140 0.5887850 0.5140187
   permut.22 permut.23 permut.24 permut.25 permut.26 permut.27 permut.28
1  0.5607477 0.5467290 0.5000000 0.5467290 0.5467290 0.5420561 0.5747664
2  0.5887850 0.5514019 0.5233645 0.5373832 0.5420561 0.5373832 0.5887850
3  0.6261682 0.5747664 0.5186916 0.5794393 0.5700935 0.5654206 0.6121495
4  0.6261682 0.5841121 0.5420561 0.5981308 0.5934579 0.6355140 0.6588785
5  0.6728972 0.5140187 0.5560748 0.6168224 0.5747664 0.5747664 0.6401869
6  0.6261682 0.5186916 0.5887850 0.6074766 0.5747664 0.6355140 0.6308411
7  0.6308411 0.5560748 0.6168224 0.6308411 0.5981308 0.6355140 0.6495327
8  0.6355140 0.5560748 0.6355140 0.6261682 0.6308411 0.6214953 0.6355140
9  0.6728972 0.5841121 0.6121495 0.6261682 0.6775701 0.6214953 0.6355140
10 0.6869159 0.5981308 0.6214953 0.5934579 0.6308411 0.6635514 0.5981308
11 0.6775701 0.6074766 0.6308411 0.5841121 0.6495327 0.6775701 0.6308411
12 0.6682243 0.6121495 0.6682243 0.6121495 0.6495327 0.6588785 0.5981308
13 0.6682243 0.6308411 0.6962617 0.6168224 0.6728972 0.6588785 0.5887850
14 0.7056075 0.6074766 0.6308411 0.6401869 0.6869159 0.6448598 0.5841121
15 0.7196262 0.6542056 0.6542056 0.6308411 0.6682243 0.6495327 0.5327103
   permut.29 permut.30 permut.31 permut.32 permut.33 permut.34 permut.35
1  0.5280374 0.5514019 0.5560748 0.5467290 0.5233645 0.5233645 0.5747664
2  0.5560748 0.5981308 0.6121495 0.5514019 0.5233645 0.5514019 0.5794393
3  0.5467290 0.5887850 0.6214953 0.5140187 0.5280374 0.5700935 0.5747664
4  0.5607477 0.6028037 0.5934579 0.5233645 0.5420561 0.5887850 0.5514019
5  0.5794393 0.6308411 0.6168224 0.5186916 0.5654206 0.5981308 0.5794393
6  0.5560748 0.6822430 0.6261682 0.5514019 0.5841121 0.6168224 0.6074766
7  0.5887850 0.6355140 0.6355140 0.5560748 0.5981308 0.6074766 0.6214953
8  0.6121495 0.6588785 0.6448598 0.5934579 0.6074766 0.6355140 0.6635514
9  0.5934579 0.6308411 0.6682243 0.6074766 0.6542056 0.6448598 0.6728972
10 0.6074766 0.6355140 0.6308411 0.5887850 0.6495327 0.6635514 0.6635514
11 0.6121495 0.6588785 0.6028037 0.5887850 0.6448598 0.6915888 0.6682243
12 0.6028037 0.6214953 0.6401869 0.6074766 0.6121495 0.7009346 0.6869159
13 0.5934579 0.6495327 0.6214953 0.5794393 0.6214953 0.7102804 0.6588785
14 0.5841121 0.6308411 0.6448598 0.5841121 0.6121495 0.6915888 0.6682243
15 0.6028037 0.6168224 0.6214953 0.6074766 0.6261682 0.6728972 0.7149533
   permut.36 permut.37 permut.38 permut.39 permut.40 permut.41 permut.42
1  0.5654206 0.5467290 0.5560748 0.5186916 0.5654206 0.5560748 0.5514019
2  0.5560748 0.5887850 0.5420561 0.5327103 0.5560748 0.5560748 0.5654206
3  0.5654206 0.5841121 0.5514019 0.4953271 0.5327103 0.5280374 0.5327103
4  0.5467290 0.6074766 0.5747664 0.5186916 0.5420561 0.5420561 0.5373832
5  0.5841121 0.5794393 0.5514019 0.5560748 0.5841121 0.5747664 0.5420561
6  0.6074766 0.6121495 0.5841121 0.5327103 0.5934579 0.5747664 0.5794393
7  0.6588785 0.6448598 0.5934579 0.5887850 0.5981308 0.6261682 0.5700935
8  0.6495327 0.6728972 0.6355140 0.5794393 0.6308411 0.6308411 0.6401869
9  0.6261682 0.6822430 0.5794393 0.5887850 0.6074766 0.6401869 0.6261682
10 0.6261682 0.6682243 0.5934579 0.5747664 0.6355140 0.6495327 0.6401869
11 0.6682243 0.6728972 0.6074766 0.5700935 0.6448598 0.6542056 0.6121495
12 0.6635514 0.7056075 0.5887850 0.5794393 0.6542056 0.6308411 0.6214953
13 0.6308411 0.6822430 0.6121495 0.6074766 0.6401869 0.6261682 0.6261682
14 0.6401869 0.6822430 0.6261682 0.5887850 0.6635514 0.6121495 0.6728972
15 0.6028037 0.6822430 0.6261682 0.5700935 0.6214953 0.5747664 0.6869159
   permut.43 permut.44 permut.45 permut.46 permut.47 permut.48 permut.49
1  0.5000000 0.5233645 0.5327103 0.5373832 0.5280374 0.5467290 0.5654206
2  0.5514019 0.5327103 0.5607477 0.5280374 0.5700935 0.5560748 0.5000000
3  0.5607477 0.5093458 0.5654206 0.5373832 0.5887850 0.5654206 0.5140187
4  0.5887850 0.5747664 0.5700935 0.5654206 0.4953271 0.5140187 0.5327103
5  0.5794393 0.6168224 0.5934579 0.5887850 0.5327103 0.5560748 0.5327103
6  0.6308411 0.6168224 0.6261682 0.5934579 0.5560748 0.5700935 0.5373832
7  0.6261682 0.6261682 0.6635514 0.6074766 0.5420561 0.5747664 0.5887850
8  0.6401869 0.6121495 0.6775701 0.6028037 0.5560748 0.5700935 0.6168224
9  0.6074766 0.5934579 0.6775701 0.6214953 0.5700935 0.6074766 0.6168224
10 0.6214953 0.6168224 0.6495327 0.6355140 0.5514019 0.6401869 0.6121495
11 0.6308411 0.6635514 0.6214953 0.6214953 0.5560748 0.6401869 0.6401869
12 0.6308411 0.6401869 0.6495327 0.6448598 0.5654206 0.6168224 0.6728972
13 0.6448598 0.6214953 0.6214953 0.6448598 0.5887850 0.6308411 0.6728972
14 0.6261682 0.6401869 0.6028037 0.6495327 0.5934579 0.6214953 0.6635514
15 0.6401869 0.6074766 0.6028037 0.6588785 0.6121495 0.5981308 0.6588785
   permut.50 permut.51 permut.52 permut.53 permut.54 permut.55 permut.56
1  0.5514019 0.5981308 0.5186916 0.5560748 0.5280374 0.5093458 0.5514019
2  0.5700935 0.5560748 0.5280374 0.5794393 0.5467290 0.5607477 0.6028037
3  0.5700935 0.5514019 0.5560748 0.5794393 0.5654206 0.5747664 0.5794393
4  0.5841121 0.5841121 0.5654206 0.5747664 0.5654206 0.6028037 0.5747664
5  0.5560748 0.5841121 0.5700935 0.5841121 0.5794393 0.6214953 0.6261682
6  0.5934579 0.6261682 0.5747664 0.6214953 0.5794393 0.5841121 0.6542056
7  0.6261682 0.6168224 0.6074766 0.6214953 0.6028037 0.5700935 0.6542056
8  0.6214953 0.6121495 0.5794393 0.6074766 0.5934579 0.5420561 0.6495327
9  0.6214953 0.6168224 0.5887850 0.6635514 0.5934579 0.5514019 0.6682243
10 0.6635514 0.5981308 0.6028037 0.6775701 0.6074766 0.5747664 0.6728972
11 0.6869159 0.6448598 0.6261682 0.6401869 0.6074766 0.5934579 0.6682243
12 0.6728972 0.6448598 0.6355140 0.6822430 0.6261682 0.5794393 0.6728972
13 0.6542056 0.6635514 0.6214953 0.6682243 0.5794393 0.5934579 0.6542056
14 0.6682243 0.6682243 0.6074766 0.6635514 0.5887850 0.5887850 0.6728972
15 0.6869159 0.6682243 0.6308411 0.6401869 0.5981308 0.5981308 0.7009346
   permut.57 permut.58 permut.59 permut.60 permut.61 permut.62 permut.63
1  0.5981308 0.5233645 0.5280374 0.5934579 0.5560748 0.5747664 0.5420561
2  0.6028037 0.5000000 0.5280374 0.5514019 0.5327103 0.5841121 0.5841121
3  0.5841121 0.5280374 0.4906542 0.5654206 0.5560748 0.6028037 0.5654206
4  0.6121495 0.5280374 0.5000000 0.5700935 0.5560748 0.6214953 0.5700935
5  0.6261682 0.5327103 0.5046729 0.5887850 0.5887850 0.6028037 0.5841121
6  0.6355140 0.5700935 0.5000000 0.5981308 0.6074766 0.6121495 0.5654206
7  0.6542056 0.6028037 0.5467290 0.6121495 0.6214953 0.6308411 0.6168224
8  0.6448598 0.6121495 0.5654206 0.5607477 0.6542056 0.6308411 0.6214953
9  0.6448598 0.6682243 0.5607477 0.5841121 0.6822430 0.6728972 0.6261682
10 0.6168224 0.6448598 0.5560748 0.5794393 0.6588785 0.6074766 0.6588785
11 0.6495327 0.6355140 0.5607477 0.5794393 0.6448598 0.6682243 0.6775701
12 0.6214953 0.6542056 0.5607477 0.5607477 0.6542056 0.6495327 0.6401869
13 0.6121495 0.6495327 0.5654206 0.5373832 0.6775701 0.6542056 0.6448598
14 0.6542056 0.6635514 0.5934579 0.5887850 0.6775701 0.6495327 0.6588785
15 0.6261682 0.6542056 0.6074766 0.5794393 0.6822430 0.6542056 0.6588785
   permut.64 permut.65 permut.66 permut.67 permut.68 permut.69 permut.70
1  0.5514019 0.5280374 0.5560748 0.5233645 0.5560748 0.5560748 0.5700935
2  0.5420561 0.5140187 0.5560748 0.5747664 0.5280374 0.5233645 0.5373832
3  0.5887850 0.5373832 0.5887850 0.5233645 0.5934579 0.5700935 0.5700935
4  0.5981308 0.5607477 0.5700935 0.5327103 0.5934579 0.5887850 0.5467290
5  0.6028037 0.5747664 0.5841121 0.5373832 0.6308411 0.6028037 0.5560748
6  0.5887850 0.6074766 0.5700935 0.5560748 0.6214953 0.6355140 0.5841121
7  0.6168224 0.6308411 0.5747664 0.5514019 0.6121495 0.6214953 0.6261682
8  0.6214953 0.5981308 0.5327103 0.5887850 0.5981308 0.6074766 0.6355140
9  0.6168224 0.5981308 0.5514019 0.6168224 0.6355140 0.6915888 0.6214953
10 0.6308411 0.6028037 0.5654206 0.6261682 0.6728972 0.6822430 0.6542056
11 0.6962617 0.6028037 0.5654206 0.5794393 0.6915888 0.6775701 0.6728972
12 0.7242991 0.6214953 0.5747664 0.6028037 0.7242991 0.6542056 0.6261682
13 0.7056075 0.6542056 0.5607477 0.6308411 0.7336449 0.6822430 0.6401869
14 0.6448598 0.6168224 0.5747664 0.5794393 0.6962617 0.7149533 0.6401869
15 0.6728972 0.6028037 0.5514019 0.5981308 0.6682243 0.7102804 0.6448598
   permut.71 permut.72 permut.73 permut.74 permut.75 permut.76 permut.77
1  0.5233645 0.5373832 0.5607477 0.5467290 0.5560748 0.5186916 0.5280374
2  0.5373832 0.5280374 0.5373832 0.5654206 0.5794393 0.5373832 0.5607477
3  0.5233645 0.5373832 0.5420561 0.5700935 0.6074766 0.5373832 0.5841121
4  0.5373832 0.5233645 0.5560748 0.5420561 0.6168224 0.5700935 0.6261682
5  0.5327103 0.5747664 0.6028037 0.5467290 0.6495327 0.6168224 0.6355140
6  0.5560748 0.6168224 0.6308411 0.5327103 0.5934579 0.6168224 0.5934579
7  0.6028037 0.6401869 0.6214953 0.5654206 0.5560748 0.6308411 0.6121495
8  0.6261682 0.6495327 0.6401869 0.5373832 0.5747664 0.6588785 0.6028037
9  0.6168224 0.6775701 0.6401869 0.5794393 0.5981308 0.6588785 0.5700935
10 0.6448598 0.6308411 0.6121495 0.5981308 0.5841121 0.6635514 0.5934579
11 0.6495327 0.6308411 0.6542056 0.5841121 0.6074766 0.6822430 0.5794393
12 0.6261682 0.6355140 0.6355140 0.5934579 0.5981308 0.6448598 0.6028037
13 0.6495327 0.6588785 0.6261682 0.5934579 0.6261682 0.6635514 0.6401869
14 0.6401869 0.6542056 0.6448598 0.5841121 0.6121495 0.6401869 0.6121495
15 0.6542056 0.6962617 0.6401869 0.6074766 0.6261682 0.6401869 0.6355140
   permut.78 permut.79 permut.80 permut.81 permut.82 permut.83 permut.84
1  0.5467290 0.5467290 0.5514019 0.5233645 0.5373832 0.5700935 0.5700935
2  0.5607477 0.5467290 0.5420561 0.5654206 0.5280374 0.5700935 0.5747664
3  0.5327103 0.5420561 0.5607477 0.5280374 0.5514019 0.5420561 0.5373832
4  0.5140187 0.5373832 0.5514019 0.5467290 0.5700935 0.5934579 0.5186916
5  0.5327103 0.5607477 0.6074766 0.5327103 0.5887850 0.6074766 0.5327103
6  0.5140187 0.5607477 0.6261682 0.5327103 0.6121495 0.5841121 0.5327103
7  0.5654206 0.5514019 0.6168224 0.5747664 0.6308411 0.6028037 0.5654206
8  0.5887850 0.5560748 0.6308411 0.5981308 0.6308411 0.5700935 0.5607477
9  0.5981308 0.6214953 0.5841121 0.6121495 0.6728972 0.5934579 0.6074766
10 0.6028037 0.5700935 0.5654206 0.6261682 0.6728972 0.6495327 0.6121495
11 0.6261682 0.5981308 0.5887850 0.6214953 0.6822430 0.6355140 0.6121495
12 0.6355140 0.5794393 0.5654206 0.6168224 0.6822430 0.6308411 0.5934579
13 0.6121495 0.6214953 0.5794393 0.6028037 0.6635514 0.6448598 0.6074766
14 0.5934579 0.5747664 0.5747664 0.6214953 0.6214953 0.6261682 0.5981308
15 0.5747664 0.5841121 0.5654206 0.6308411 0.6401869 0.6448598 0.6121495
   permut.85 permut.86 permut.87 permut.88 permut.89 permut.90 permut.91
1  0.5420561 0.5700935 0.5607477 0.5467290 0.5514019 0.5514019 0.5700935
2  0.5046729 0.5560748 0.5327103 0.5607477 0.5934579 0.5841121 0.5514019
3  0.5233645 0.5841121 0.5420561 0.5327103 0.6261682 0.6074766 0.5373832
4  0.5700935 0.6355140 0.5467290 0.5467290 0.6308411 0.6028037 0.5560748
5  0.6074766 0.6915888 0.5700935 0.5514019 0.6355140 0.5934579 0.5794393
6  0.5794393 0.6682243 0.5560748 0.5887850 0.6308411 0.5981308 0.5981308
7  0.6121495 0.6542056 0.5887850 0.6121495 0.6261682 0.6495327 0.6214953
8  0.6308411 0.6728972 0.5607477 0.6448598 0.6495327 0.6355140 0.6168224
9  0.6214953 0.6869159 0.5467290 0.6261682 0.6775701 0.6074766 0.6401869
10 0.6308411 0.7056075 0.5841121 0.6448598 0.7289720 0.6168224 0.6308411
11 0.6495327 0.7196262 0.5794393 0.6308411 0.6869159 0.6028037 0.6308411
12 0.6728972 0.7289720 0.5841121 0.6168224 0.6261682 0.6168224 0.6682243
13 0.6588785 0.7149533 0.5981308 0.6588785 0.6308411 0.6028037 0.6261682
14 0.6635514 0.6869159 0.6028037 0.6542056 0.6308411 0.5700935 0.6495327
15 0.6682243 0.6962617 0.5841121 0.6495327 0.5934579 0.6074766 0.6308411
   permut.92 permut.93 permut.94 permut.95 permut.96 permut.97 permut.98
1  0.5560748 0.5373832 0.5280374 0.5654206 0.5700935 0.5373832 0.5420561
2  0.5560748 0.5420561 0.5373832 0.5747664 0.5467290 0.5560748 0.5607477
3  0.5654206 0.5607477 0.5887850 0.5887850 0.5841121 0.5607477 0.5233645
4  0.5887850 0.6261682 0.5841121 0.5560748 0.5747664 0.5373832 0.5654206
5  0.6028037 0.5887850 0.5934579 0.5747664 0.5747664 0.5514019 0.5981308
6  0.6121495 0.6074766 0.6168224 0.5607477 0.6074766 0.5841121 0.6028037
7  0.5934579 0.5887850 0.6401869 0.5887850 0.6074766 0.5607477 0.6074766
8  0.5794393 0.6355140 0.6355140 0.5934579 0.6074766 0.5747664 0.6214953
9  0.5747664 0.6401869 0.6168224 0.6261682 0.6121495 0.5794393 0.6448598
10 0.5887850 0.6542056 0.6542056 0.6028037 0.5794393 0.5887850 0.6495327
11 0.6074766 0.6588785 0.6682243 0.6401869 0.5887850 0.5794393 0.6542056
12 0.6214953 0.6355140 0.6635514 0.6214953 0.5747664 0.5747664 0.6635514
13 0.6355140 0.6121495 0.6214953 0.6355140 0.5841121 0.6028037 0.6448598
14 0.5981308 0.6121495 0.6495327 0.6261682 0.5700935 0.5981308 0.6168224
15 0.5887850 0.6261682 0.6355140 0.6121495 0.5654206 0.6308411 0.6261682
   permut.99 permut.100  err.mean     err.sd   err.sterr
1  0.5700935  0.5654206 0.5469626 0.01925397 0.001925397
2  0.5560748  0.5981308 0.5528972 0.02543788 0.002543788
3  0.5560748  0.6168224 0.5600935 0.03227256 0.003227256
4  0.6028037  0.6121495 0.5712150 0.03450601 0.003450601
5  0.5934579  0.6401869 0.5847664 0.03665040 0.003665040
6  0.6355140  0.6261682 0.5928037 0.03488047 0.003488047
7  0.6261682  0.6121495 0.6064486 0.03293258 0.003293258
8  0.6121495  0.5934579 0.6131776 0.03824977 0.003824977
9  0.6074766  0.6261682 0.6226636 0.04056578 0.004056578
10 0.6121495  0.6635514 0.6280374 0.03943331 0.003943331
11 0.6261682  0.6635514 0.6328505 0.04153232 0.004153232
12 0.5841121  0.6214953 0.6312150 0.04005310 0.004005310
13 0.6261682  0.6448598 0.6344393 0.03954421 0.003954421
14 0.6074766  0.6588785 0.6306542 0.04028504 0.004028504
15 0.6121495  0.6682243 0.6310280 0.04200580 0.004200580

$permut.pc.stepwise.qda$best.p
[1] 1

$permut.pc.stepwise.qda$best.error
[1] 0.5654206

$permut.pc.stepwise.qda$best.pda
$permut.pc.stepwise.qda$best.pda$class
  [1] CTL MET CTL MET CTL CTL CTL CTL CTL CTL MET CTL CTL CTL CTL MET CTL CTL
 [19] MET CTL MET MET MET MET CTL CTL MET MET MET MET MET MET MET MET MET MET
 [37] MET MET CTL MET CTL CTL MET MET CTL CTL CTL MET MET CTL MET CTL MET MET
 [55] MET MET CTL CTL CTL CTL CTL CTL CTL CTL MET MET MET MET MET CTL MET MET
 [73] CTL MET MET MET CTL CTL MET CTL CTL MET CTL MET CTL MET CTL PHO CTL MET
 [91] CTL CTL MET CTL CTL MET CTL CTL CTL MET CTL CTL CTL CTL CTL CTL MET MET
[109] CTL CTL CTL MET CTL MET MET CTL MET CTL CTL CTL CTL CTL MET CTL CTL CTL
[127] CTL MET MET MET CTL CTL MET MET CTL MET CTL MET MET CTL MET CTL CTL CTL
[145] CTL MET MET CTL MET MET CTL MET CTL CTL CTL MET CTL MET CTL CTL CTL CTL
[163] CTL MET CTL CTL MET MET MET MET MET MET CTL CTL MET MET CTL CTL MET CTL
[181] CTL CTL MET MET MET MET CTL CTL CTL MET CTL CTL MET MET MET CTL CTL CTL
[199] MET CTL MET MET CTL CTL CTL CTL CTL CTL MET CTL MET MET MET CTL
Levels: CTL MET PHO

$permut.pc.stepwise.qda$best.pda$posterior
              CTL       MET        PHO
  [1,] 0.47016635 0.3758475 0.15398614
  [2,] 0.16021289 0.5526607 0.28712640
  [3,] 0.42931817 0.4153574 0.15532444
  [4,] 0.25142732 0.5008090 0.24776368
  [5,] 0.45829338 0.3808302 0.16087645
  [6,] 0.44343870 0.3850089 0.17155238
  [7,] 0.44423102 0.3857926 0.16997639
  [8,] 0.41485019 0.4032349 0.18191495
  [9,] 0.47032947 0.3757514 0.15391910
 [10,] 0.46202120 0.3785311 0.15944775
 [11,] 0.38527085 0.4184656 0.19626351
 [12,] 0.45379566 0.3812328 0.16497156
 [13,] 0.43774670 0.3891725 0.17308076
 [14,] 0.42930923 0.3937632 0.17692753
 [15,] 0.45359660 0.3813193 0.16508415
 [16,] 0.30341736 0.4719146 0.22466803
 [17,] 0.46108016 0.3847325 0.15418730
 [18,] 0.46355876 0.3811188 0.15532244
 [19,] 0.32117460 0.4588247 0.22000070
 [20,] 0.45625281 0.4528424 0.09090476
 [21,] 0.39508244 0.4149294 0.18998812
 [22,] 0.17964126 0.5629958 0.25736293
 [23,] 0.32337359 0.4591695 0.21745686
 [24,] 0.37644146 0.4237932 0.19976539
 [25,] 0.41569566 0.4014609 0.18284340
 [26,] 0.41376316 0.4016116 0.18462524
 [27,] 0.37727405 0.4232892 0.19943679
 [28,] 0.16604787 0.5497387 0.28421347
 [29,] 0.39552433 0.4146645 0.18981115
 [30,] 0.40018212 0.4105123 0.18930562
 [31,] 0.32918491 0.4527813 0.21803377
 [32,] 0.32363192 0.4572873 0.21908078
 [33,] 0.40094167 0.4100639 0.18899443
 [34,] 0.39186018 0.4168651 0.19127473
 [35,] 0.27914312 0.4837849 0.23707197
 [36,] 0.32851868 0.4542349 0.21724638
 [37,] 0.33529496 0.4516585 0.21304655
 [38,] 0.30364137 0.4698398 0.22651881
 [39,] 0.40780811 0.4060333 0.18615859
 [40,] 0.38132264 0.4232373 0.19544001
 [41,] 0.46434296 0.3791568 0.15650027
 [42,] 0.44597695 0.4001979 0.15382515
 [43,] 0.40379155 0.4097342 0.18647422
 [44,] 0.33373295 0.4509856 0.21528145
 [45,] 0.41254272 0.4032805 0.18417680
 [46,] 0.45881289 0.3873741 0.15381303
 [47,] 0.46283576 0.3785235 0.15864072
 [48,] 0.38994717 0.4156608 0.19439200
 [49,] 0.26101315 0.5000260 0.23896087
 [50,] 0.44251201 0.3855027 0.17198529
 [51,] 0.19821913 0.5323274 0.26945346
 [52,] 0.46406044 0.3792082 0.15673141
 [53,] 0.40061500 0.4102567 0.18912833
 [54,] 0.23436141 0.5140239 0.25161465
 [55,] 0.10062379 0.5733397 0.32603648
 [56,] 0.10095365 0.6649055 0.23414082
 [57,] 0.43135915 0.3938539 0.17478695
 [58,] 0.45925756 0.3770428 0.16369964
 [59,] 0.42108796 0.3983780 0.18053401
 [60,] 0.43743399 0.3882449 0.17432108
 [61,] 0.42692991 0.3963193 0.17675082
 [62,] 0.42742155 0.3938001 0.17877836
 [63,] 0.42692991 0.3963193 0.17675082
 [64,] 0.41954255 0.3992576 0.18119990
 [65,] 0.36629477 0.4299593 0.20374598
 [66,] 0.19440011 0.5399246 0.26567534
 [67,] 0.27703277 0.4892000 0.23376726
 [68,] 0.33745526 0.4486710 0.21387374
 [69,] 0.36359639 0.4340779 0.20232570
 [70,] 0.46390543 0.3802676 0.15582695
 [71,] 0.30562203 0.4673847 0.22699331
 [72,] 0.29153867 0.4761156 0.23234571
 [73,] 0.46401394 0.3797181 0.15626799
 [74,] 0.39767841 0.4110532 0.19126842
 [75,] 0.26935428 0.4898223 0.24082346
 [76,] 0.32841762 0.4532561 0.21832624
 [77,] 0.43532491 0.3894002 0.17527493
 [78,] 0.45481280 0.3791698 0.16601741
 [79,] 0.37280854 0.4259959 0.20119553
 [80,] 0.41461544 0.4011179 0.18426670
 [81,] 0.46383055 0.3750044 0.16116502
 [82,] 0.26006971 0.5006733 0.23925701
 [83,] 0.42269110 0.3964793 0.18082958
 [84,] 0.39971000 0.4098491 0.19044088
 [85,] 0.45022717 0.3841565 0.16561631
 [86,] 0.37437132 0.4274718 0.19815686
 [87,] 0.44592297 0.3836967 0.17038037
 [88,] 0.02919437 0.4519204 0.51888525
 [89,] 0.47421464 0.3855030 0.14028235
 [90,] 0.34462618 0.4432457 0.21212815
 [91,] 0.42234987 0.3966737 0.18097638
 [92,] 0.43584672 0.3901902 0.17396304
 [93,] 0.35698747 0.4381537 0.20485880
 [94,] 0.42509983 0.3973507 0.17754950
 [95,] 0.44772327 0.3840510 0.16822573
 [96,] 0.18699270 0.5447581 0.26824924
 [97,] 0.44081342 0.3875541 0.17163248
 [98,] 0.45335527 0.3814248 0.16521997
 [99,] 0.47051867 0.3725765 0.15690479
[100,] 0.40494582 0.4077083 0.18734586
[101,] 0.45481896 0.3791668 0.16601427
[102,] 0.45710316 0.3812631 0.16163369
[103,] 0.47335217 0.3723391 0.15430871
[104,] 0.45093516 0.3825189 0.16654599
[105,] 0.43318998 0.3905782 0.17623182
[106,] 0.46383230 0.3804879 0.15567982
[107,] 0.37172985 0.4266511 0.20161907
[108,] 0.24279725 0.5085937 0.24860908
[109,] 0.45294025 0.3800973 0.16696249
[110,] 0.42543614 0.3971606 0.17740324
[111,] 0.45002884 0.3815691 0.16840207
[112,] 0.39148476 0.4156776 0.19283760
[113,] 0.41569969 0.4004908 0.18380948
[114,] 0.29191238 0.4758841 0.23220351
[115,] 0.17593710 0.5664179 0.25764502
[116,] 0.45567771 0.3787471 0.16557516
[117,] 0.40184288 0.4095325 0.18862458
[118,] 0.43811232 0.3878753 0.17401239
[119,] 0.45537450 0.3910319 0.15359364
[120,] 0.44978705 0.3830574 0.16715553
[121,] 0.42260100 0.3975203 0.17987868
[122,] 0.45019201 0.3828662 0.16694180
[123,] 0.10179559 0.5732100 0.32499443
[124,] 0.47207297 0.3722593 0.15566772
[125,] 0.46184542 0.3785492 0.15960542
[126,] 0.46114755 0.3761780 0.16267447
[127,] 0.44440919 0.3844942 0.17109657
[128,] 0.38671429 0.4185330 0.19475271
[129,] 0.36349330 0.4326117 0.20389502
[130,] 0.39581413 0.4121606 0.19202524
[131,] 0.41684384 0.3998305 0.18332565
[132,] 0.41437402 0.4022222 0.18340375
[133,] 0.39463957 0.4128596 0.19250084
[134,] 0.17072548 0.5473337 0.28194087
[135,] 0.44012515 0.3891425 0.17073230
[136,] 0.38992325 0.4156751 0.19440161
[137,] 0.42010096 0.3979588 0.18194027
[138,] 0.37086622 0.4281128 0.20102102
[139,] 0.28424493 0.4806310 0.23512410
[140,] 0.42181355 0.3979663 0.18022017
[141,] 0.11821078 0.6347840 0.24700519
[142,] 0.47046881 0.4094089 0.12012231
[143,] 0.47028631 0.3757770 0.15393664
[144,] 0.46376669 0.3806589 0.15557446
[145,] 0.46400825 0.3794211 0.15657060
[146,] 0.40093655 0.4100669 0.18899653
[147,] 0.30668321 0.4679233 0.22539349
[148,] 0.40956282 0.4040554 0.18638173
[149,] 0.31870669 0.4603704 0.22092294
[150,] 0.37503777 0.4246436 0.20031866
[151,] 0.41909374 0.3995136 0.18139265
[152,] 0.24148799 0.5068456 0.25166645
[153,] 0.45849618 0.3877243 0.15377957
[154,] 0.45763365 0.3778063 0.16456010
[155,] 0.46370808 0.3807985 0.15549347
[156,] 0.38107750 0.4209910 0.19793153
[157,] 0.41035271 0.4035946 0.18605270
[158,] 0.32534862 0.4579204 0.21673103
[159,] 0.45225362 0.3941687 0.15357770
[160,] 0.42902582 0.3939203 0.17705388
[161,] 0.46376942 0.3806521 0.15557851
[162,] 0.46585288 0.3741747 0.15997238
[163,] 0.41948387 0.4005545 0.17996167
[164,] 0.07651458 0.5705233 0.35296214
[165,] 0.43938768 0.3895282 0.17108416
[166,] 0.45560946 0.3787803 0.16561020
[167,] 0.16972320 0.5723364 0.25794035
[168,] 0.14947349 0.5577740 0.29275251
[169,] 0.18204005 0.5479956 0.26996432
[170,] 0.38576394 0.4205442 0.19369181
[171,] 0.39084636 0.4160589 0.19309474
[172,] 0.37219290 0.4263698 0.20143731
[173,] 0.44583762 0.3849830 0.16917934
[174,] 0.44583762 0.3849830 0.16917934
[175,] 0.20112744 0.5444368 0.25443577
[176,] 0.09237476 0.5736826 0.33394264
[177,] 0.42380963 0.3958431 0.18034730
[178,] 0.46148609 0.3785988 0.15991508
[179,] 0.37650656 0.4237537 0.19973971
[180,] 0.47294643 0.3722321 0.15482146
[181,] 0.45600837 0.3785866 0.16540506
[182,] 0.41016534 0.4037039 0.18613080
[183,] 0.33362452 0.4510531 0.21532239
[184,] 0.19192255 0.5358738 0.27220369
[185,] 0.37296437 0.4268370 0.20019861
[186,] 0.30055968 0.4705241 0.22891618
[187,] 0.43855575 0.3887425 0.17270174
[188,] 0.42242015 0.3966337 0.18094616
[189,] 0.45047870 0.3827316 0.16678967
[190,] 0.12403098 0.5863080 0.28966101
[191,] 0.41650929 0.4000234 0.18346727
[192,] 0.44908921 0.3833899 0.16752084
[193,] 0.38444351 0.4189631 0.19659334
[194,] 0.36229459 0.4324011 0.20530430
[195,] 0.37850742 0.4225431 0.19894943
[196,] 0.42306743 0.3962651 0.18066750
[197,] 0.42295639 0.3973194 0.17972425
[198,] 0.41211882 0.4025663 0.18531490
[199,] 0.07382734 0.6202955 0.30587716
[200,] 0.47290864 0.3722284 0.15486299
[201,] 0.35390372 0.4375404 0.20855589
[202,] 0.14159032 0.5746272 0.28378249
[203,] 0.41755894 0.4003913 0.18204976
[204,] 0.45225431 0.3819149 0.16583084
[205,] 0.42016845 0.3979201 0.18191143
[206,] 0.40728684 0.4063378 0.18637539
[207,] 0.47282404 0.3722223 0.15495365
[208,] 0.43573524 0.3891747 0.17509004
[209,] 0.29985758 0.4742145 0.22592793
[210,] 0.45693424 0.3781402 0.16492558
[211,] 0.30019295 0.4707515 0.22905551
[212,] 0.37626585 0.4248340 0.19890017
[213,] 0.37221053 0.4287926 0.19899687
[214,] 0.44031314 0.3890446 0.17064224

$permut.pc.stepwise.qda$best.pda$call
qda(x = data.training, grouping = labels.training, CV = loo, 
    na.action = na.omit)

$permut.pc.stepwise.qda$best.pda$training.label
  [1] MET MET CTL MET PHO MET CTL PHO MET CTL MET CTL CTL CTL CTL PHO CTL CTL
 [19] CTL PHO PHO PHO PHO MET CTL MET MET MET PHO CTL MET CTL CTL PHO MET CTL
 [37] PHO CTL CTL PHO PHO CTL PHO CTL CTL CTL CTL MET PHO MET MET PHO CTL CTL
 [55] MET PHO PHO MET CTL MET PHO MET PHO CTL MET CTL PHO CTL PHO CTL MET MET
 [73] CTL MET MET MET MET MET MET MET MET PHO MET MET PHO PHO MET MET PHO MET
 [91] MET CTL PHO PHO CTL CTL CTL CTL MET CTL MET PHO MET CTL MET CTL MET CTL
[109] MET PHO MET CTL MET MET PHO MET CTL MET CTL CTL CTL CTL MET MET CTL MET
[127] MET CTL CTL MET MET CTL MET MET PHO MET MET CTL MET CTL PHO PHO MET CTL
[145] CTL CTL CTL MET CTL MET CTL MET CTL MET CTL MET MET PHO CTL CTL CTL MET
[163] PHO MET PHO MET PHO MET CTL PHO CTL MET CTL CTL PHO MET MET CTL MET MET
[181] MET MET CTL MET CTL MET CTL MET CTL CTL MET CTL MET MET MET MET CTL MET
[199] CTL MET MET CTL CTL CTL MET CTL MET MET PHO MET MET CTL PHO PHO
Levels: CTL MET PHO

$permut.pc.stepwise.qda$best.pda$pda.method
[1] "qda"

$permut.pc.stepwise.qda$best.pda$loo
[1] TRUE

$permut.pc.stepwise.qda$best.pda$validation
[1] "LOO"

$permut.pc.stepwise.qda$best.pda$confusion
      true
object CTL MET PHO
   CTL  50  48  18
   MET  30  43  24
   PHO   0   1   0
attr(,"error")
[1] 0.5654206



$max.p
[1] 15

$errors
   stepwise.lda pc.stepwise.lda permut.stepwise.lda permut.pc.stepwise.lda
1    0.18691589      0.28504673           0.5384112              0.5379907
2    0.07476636      0.12149533           0.5276636              0.5263084
3    0.05607477      0.08411215           0.5274299              0.5252336
4    0.04672897      0.06542056           0.5289720              0.5269159
5    0.04672897      0.06542056           0.5312150              0.5306075
6    0.04672897      0.07009346           0.5346729              0.5355607
7    0.05140187      0.06542056           0.5375234              0.5410280
8    0.05140187      0.05607477           0.5419159              0.5456542
9    0.04672897      0.05607477           0.5470561              0.5522430
10   0.04672897      0.06074766           0.5554206              0.5584112
11   0.04672897      0.06074766           0.5604206              0.5656542
12   0.04672897      0.05140187           0.5668692              0.5738785
13   0.04672897      0.05140187           0.5764486              0.5830841
14   0.05607477      0.05140187           0.5873364              0.5925701
15   0.06542056      0.06542056           0.6037383              0.6112617
   stepwise.qda pc.stepwise.qda permut.stepwise.qda permut.pc.stepwise.qda
1    0.17757009      0.29906542           0.5506075              0.5469626
2    0.07476636      0.12149533           0.5532710              0.5528972
3    0.07009346      0.08411215           0.5623364              0.5600935
4    0.05140187      0.07943925           0.5745327              0.5712150
5    0.06074766      0.07943925           0.5835047              0.5847664
6    0.05607477      0.08878505           0.5907009              0.5928037
7    0.04672897      0.07943925           0.6002336              0.6064486
8    0.05140187      0.08411215           0.6084112              0.6131776
9    0.06074766      0.09345794           0.6148131              0.6226636
10   0.07009346      0.08878505           0.6186916              0.6280374
11   0.06542056      0.08878505           0.6240187              0.6328505
12   0.07476636      0.09345794           0.6249065              0.6312150
13   0.09345794      0.09345794           0.6273832              0.6344393
14   0.08878505      0.09345794           0.6279907              0.6306542
15   0.09345794      0.09345794           0.6311682              0.6310280

$legend.labels
[1] "LDA"                   "LDA with PC"           "LDA, permuted"        
[4] "LDA with PC, permuted" "QDA"                   "QDA with PC"          
[7] "QDA, permuted"         "QDA with PC, permuted"

$confusion.table
                        p      error CTL.CTL CTL.MET CTL.PHO MET.CTL MET.MET
stepwise.lda           13 0.04672897      74       2       4       2      88
pc.stepwise.lda        14 0.05140187      74       3       3       2      87
permut.stepwise.lda     5 0.54672897      30      48       2      23      66
permut.pc.stepwise.lda  4 0.53738318      38      42       0      31      61
stepwise.qda            7 0.04672897      76       3       1       3      88
pc.stepwise.qda         7 0.07943925      71       8       1       3      86
permut.stepwise.qda     3 0.51869159      41      39       0      29      62
permut.pc.stepwise.qda  1 0.56542056      50      30       0      48      43
                       MET.PHO PHO.CTL PHO.MET PHO.PHO
stepwise.lda                 2       0       0      42
pc.stepwise.lda              3       0       0      42
permut.stepwise.lda          3      15      26       1
permut.pc.stepwise.lda       0      14      28       0
stepwise.qda                 1       1       1      40
pc.stepwise.qda              3       1       1      40
permut.stepwise.qda          1      19      23       0
permut.pc.stepwise.qda       1      18      24       0

$best.errors
[1] 0.04672897

$best.vars
 [1]  4 10  1  7  3  8  2  5 12  9 11 15 14

$best.method
[1] "stepwise.lda"

$best.pda
$best.pda$max.p
[1] 15

$best.pda$errors
 [1] 0.18691589 0.07476636 0.05607477 0.04672897 0.04672897 0.04672897
 [7] 0.05140187 0.05140187 0.04672897 0.04672897 0.04672897 0.04672897
[13] 0.04672897 0.05607477 0.06542056

$best.pda$confusion.table
   step              error added.var added.var.name CTL.CTL CTL.MET CTL.PHO
1     1  0.186915887850467         4      Pho4p.g.1      64      15       1
2     2  0.074766355140187        10        Met4p.1      73       3       4
3     3 0.0560747663551402         1        Pho4p.1      74       3       3
4     4 0.0467289719626168         7      Pho4p.t.1      74       3       3
5     5 0.0467289719626168         3        Pho4p.3      74       3       3
6     6 0.0467289719626168         8      Pho4p.t.2      75       2       3
7     7 0.0514018691588785         2        Pho4p.2      75       2       3
8     8 0.0514018691588785         5      Pho4p.g.2      75       1       4
9     9 0.0467289719626168        12        Met4p.3      75       1       4
10   10 0.0467289719626168         9      Pho4p.t.3      75       1       4
11   11 0.0467289719626168        11        Met4p.2      75       1       4
12   12 0.0467289719626168        15       Met31p.3      74       2       4
13   13 0.0467289719626168        14       Met31p.2      74       2       4
14   14 0.0560747663551402         6      Pho4p.g.3      73       3       4
15   15 0.0654205607476636        13       Met31p.1      73       3       4
   MET.CTL MET.MET MET.PHO PHO.CTL PHO.MET PHO.PHO
1       11      74       7       0       6      36
2        3      87       2       3       1      38
3        3      86       3       0       0      42
4        3      88       1       0       0      42
5        3      88       1       0       0      42
6        3      87       2       0       0      42
7        3      86       3       0       0      42
8        3      86       3       0       0      42
9        2      87       3       0       0      42
10       2      87       3       0       0      42
11       2      87       3       0       0      42
12       2      88       2       0       0      42
13       2      88       2       0       0      42
14       2      88       2       0       1      41
15       2      87       3       0       2      40

$best.pda$best.pda
$best.pda$best.pda$class
  [1] PHO PHO MET PHO PHO PHO CTL CTL CTL CTL CTL PHO CTL MET MET PHO PHO CTL
 [19] PHO PHO CTL CTL CTL CTL CTL MET PHO CTL PHO PHO PHO CTL MET MET PHO CTL
 [37] PHO PHO MET MET CTL PHO MET MET MET PHO PHO CTL CTL PHO PHO CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET CTL MET MET PHO MET CTL CTL CTL
 [73] CTL CTL MET MET CTL MET PHO CTL CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET PHO PHO PHO CTL PHO PHO CTL PHO CTL MET MET MET MET MET MET CTL PHO
[109] CTL PHO PHO MET CTL MET MET MET MET CTL MET CTL PHO CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET CTL MET CTL CTL PHO PHO MET
[145] MET MET MET MET MET MET CTL PHO CTL CTL MET MET MET CTL CTL CTL PHO CTL
[163] CTL CTL PHO MET PHO MET CTL CTL MET MET PHO PHO PHO MET CTL PHO CTL CTL
[181] PHO CTL MET MET MET CTL CTL CTL MET MET CTL CTL CTL PHO PHO MET CTL CTL
[199] CTL PHO MET MET CTL MET MET MET CTL MET CTL CTL CTL MET MET MET
Levels: CTL MET PHO

$best.pda$best.pda$posterior
                   CTL          MET          PHO
YAL002W   5.904518e-04 2.861259e-03 9.965483e-01
YAL038W   6.805389e-02 3.219962e-04 9.316241e-01
YAR064W   1.605590e-08 9.743119e-01 2.568809e-02
YAR069C   2.210306e-03 1.036715e-03 9.967530e-01
YAR070C   2.572935e-06 6.235855e-05 9.999351e-01
YAR071W   4.875471e-06 7.408873e-05 9.999210e-01
YBL005W   9.999996e-01 3.359509e-07 2.078091e-08
YBL030C   9.999988e-01 1.054673e-06 1.599454e-07
YBR006W   9.580131e-01 4.196476e-02 2.218344e-05
YBR018C   9.999986e-01 1.383025e-06 6.014554e-08
YBR020W   9.999996e-01 3.818174e-07 7.016604e-09
YBR093C   3.498641e-06 4.516424e-06 9.999920e-01
YBR115C   9.999971e-01 2.900222e-06 3.910040e-08
YBR184W   4.495624e-01 5.503752e-01 6.240255e-05
YBR213W   1.885371e-01 8.114161e-01 4.680299e-05
YBR222C   5.483197e-03 4.732420e-01 5.212748e-01
YBR296C   1.008833e-07 8.665936e-07 9.999990e-01
YCL018W   9.999242e-01 7.576469e-05 2.657987e-08
YCR047C   2.528619e-04 2.156157e-03 9.975910e-01
YCR098C   1.367635e-05 9.223126e-04 9.990640e-01
YDL131W   9.997785e-01 2.191519e-04 2.318735e-06
YDL182W   9.999581e-01 2.919327e-05 1.272096e-05
YDL205C   1.000000e+00 3.087267e-08 2.518326e-09
YDL210W   9.997798e-01 2.198199e-04 3.393032e-07
YDR011W   9.998926e-01 1.071745e-04 1.764126e-07
YDR023W   1.316416e-04 9.998649e-01 3.417461e-06
YDR041W   4.168521e-05 6.571036e-04 9.993012e-01
YDR044W   9.999996e-01 4.355872e-07 1.830749e-09
YDR054C   2.657617e-05 2.263000e-03 9.977104e-01
YDR055W   5.783974e-06 6.801790e-04 9.993140e-01
YDR169C   8.145324e-10 9.103925e-05 9.999090e-01
YDR234W   9.993122e-01 5.042718e-04 1.835169e-04
YDR253C   5.544538e-04 9.994386e-01 6.903576e-06
YDR254W   3.432255e-04 9.996391e-01 1.765578e-05
YDR281C   3.404812e-04 2.021172e-04 9.994574e-01
YDR285W   9.981698e-01 1.830158e-03 5.578022e-09
YDR310C   1.374652e-07 2.389457e-06 9.999975e-01
YDR311W   8.748968e-07 2.601535e-06 9.999965e-01
YDR381C-A 1.371443e-04 9.998626e-01 2.532711e-07
YDR382W   1.660747e-04 9.998338e-01 1.323948e-07
YDR406W   9.999992e-01 7.612059e-07 5.416933e-08
YDR481C   2.116435e-03 5.768525e-05 9.978259e-01
YDR502C   1.038794e-02 9.894938e-01 1.182749e-04
YDR508C   1.552931e-03 9.975335e-01 9.135598e-04
YDR510W   1.776580e-03 9.967145e-01 1.508923e-03
YEL017C-A 2.094207e-05 3.212842e-05 9.999469e-01
YEL017W   1.629714e-04 4.985698e-05 9.997872e-01
YEL021W   9.999934e-01 6.552200e-06 6.011291e-10
YEL039C   9.999932e-01 6.754531e-06 1.049104e-08
YEL044W   2.378445e-04 2.749753e-02 9.722646e-01
YEL046C   3.185867e-03 2.202931e-02 9.747848e-01
YER026C   9.988790e-01 1.101205e-03 1.978589e-05
YER086W   9.999993e-01 6.984847e-07 1.426897e-11
YER091C-A 5.144134e-04 9.994730e-01 1.257407e-05
YER091C   4.338821e-06 9.993742e-01 6.214548e-04
YER092W   4.338821e-06 9.993742e-01 6.214548e-04
YER125W   2.406526e-04 9.997451e-01 1.428137e-05
YER179W   9.999987e-01 1.152156e-06 1.118823e-07
YFL023W   1.819185e-04 9.998024e-01 1.572652e-05
YFL024C   1.819185e-04 9.998024e-01 1.572652e-05
YFL031W   1.016467e-06 9.999937e-01 5.254648e-06
YFL032W   3.439059e-06 9.999949e-01 1.664126e-06
YFL033C   1.016467e-06 9.999937e-01 5.254648e-06
YFR030W   7.018017e-06 9.999910e-01 2.027139e-06
YGL009C   9.999983e-01 1.745538e-06 1.254623e-09
YGL055W   9.891647e-07 9.998751e-01 1.239435e-04
YGL056C   5.987143e-07 9.999086e-01 9.075931e-05
YGL073W   3.079458e-01 7.017059e-02 6.218837e-01
YGL125W   3.021430e-05 9.998647e-01 1.050555e-04
YGL213C   8.460609e-01 1.513258e-04 1.537878e-01
YGR019W   9.999200e-01 7.805815e-05 1.984248e-06
YGR044C   9.993974e-01 2.285705e-04 3.740748e-04
YGR088W   9.993790e-01 3.871271e-04 2.338265e-04
YGR121C   1.000000e+00 2.795138e-08 1.955241e-08
YGR154C   3.925378e-04 9.992317e-01 3.757974e-04
YGR155W   2.545242e-04 9.994503e-01 2.951538e-04
YGR157W   6.804288e-01 3.195122e-01 5.899514e-05
YGR204W   2.219556e-04 9.734844e-01 2.629359e-02
YGR233C   3.190056e-07 5.357466e-04 9.994639e-01
YGR281W   3.934928e-01 3.789555e-01 2.275517e-01
YHL022C   9.999996e-01 4.182840e-07 2.972542e-10
YHL036W   4.370183e-03 9.042774e-01 9.135244e-02
YHR001W-A 1.111696e-05 9.999122e-01 7.664893e-05
YHR007C   9.984840e-01 1.512151e-03 3.875237e-06
YHR008C   9.996492e-01 3.435299e-04 7.266970e-06
YHR014W   9.315909e-01 6.829068e-02 1.184228e-04
YHR037W   9.779044e-01 3.004854e-03 1.909070e-02
YHR046C   1.594672e-04 9.997242e-01 1.162961e-04
YHR082C   5.617699e-05 9.998747e-01 6.915668e-05
YHR083W   9.578971e-04 9.989444e-01 9.767079e-05
YHR089C   6.758870e-04 9.959688e-01 3.355273e-03
YHR107C   5.210746e-02 3.959778e-03 9.439328e-01
YHR136C   5.789948e-08 1.542511e-02 9.845748e-01
YHR137W   2.794997e-08 1.860781e-02 9.813922e-01
YHR153C   9.996034e-01 2.187018e-04 1.779441e-04
YHR168W   3.021142e-07 1.361802e-03 9.986379e-01
YHR215W   4.875471e-06 7.408873e-05 9.999210e-01
YIL015W   9.999450e-01 5.497421e-05 6.549609e-08
YIL046W   1.725597e-03 1.207916e-02 9.861952e-01
YIL072W   9.997720e-01 2.255364e-04 2.468332e-06
YIL092W   3.505122e-04 9.942819e-01 5.367617e-03
YIL106W   4.154369e-04 9.976547e-01 1.929874e-03
YIL107C   2.143558e-05 9.987005e-01 1.278019e-03
YIL126W   2.742014e-03 9.948704e-01 2.387627e-03
YIL127C   6.402081e-06 9.996410e-01 3.525823e-04
YIR017C   7.571026e-05 9.999186e-01 5.706924e-06
YIR034C   9.132109e-01 7.536561e-04 8.603544e-02
YJL012C   5.582924e-07 2.299447e-06 9.999971e-01
YJL106W   9.998695e-01 1.121951e-04 1.825880e-05
YJL117W   3.737522e-05 2.171888e-02 9.782437e-01
YJL119C   1.815865e-02 1.636889e-01 8.181525e-01
YJL129C   6.917060e-04 9.911924e-01 8.115864e-03
YJL153C   9.982993e-01 1.694570e-03 6.166406e-06
YJL167W   3.882737e-05 9.986459e-01 1.315289e-03
YJL168C   1.588425e-04 9.986328e-01 1.208318e-03
YJL186W   3.727648e-06 9.999962e-01 1.191883e-07
YJL187C   3.727648e-06 9.999962e-01 1.191883e-07
YJL219W   9.998957e-01 6.094736e-05 4.331273e-05
YJR010W   4.854300e-06 9.999926e-01 2.503987e-06
YJR048W   9.891344e-01 1.084067e-02 2.487904e-05
YJR073C   2.207144e-01 6.672692e-02 7.125587e-01
YJR094C   9.999046e-01 8.841786e-06 8.657839e-05
YJR095W   7.694412e-05 9.999211e-01 1.961267e-06
YJR113C   6.380151e-05 9.999341e-01 2.058412e-06
YJR115W   2.787851e-05 9.999699e-01 2.197360e-06
YJR137C   1.730780e-03 9.976461e-01 6.231632e-04
YJR138W   9.040279e-06 9.999837e-01 7.279147e-06
YJR139C   2.668260e-04 9.997324e-01 7.342543e-07
YJR152W   7.819412e-01 2.173825e-01 6.763263e-04
YKL001C   1.162095e-09 1.000000e+00 2.112353e-09
YKL007W   4.061841e-04 9.882450e-01 1.134878e-02
YKL008C   4.061841e-04 9.882450e-01 1.134878e-02
YKL015W   2.306146e-05 9.999731e-01 3.800133e-06
YKL016C   6.749655e-06 9.999905e-01 2.734029e-06
YKL088W   1.185540e-04 9.991129e-01 7.685089e-04
YKL128C   1.399232e-03 9.956678e-01 2.932990e-03
YKL139W   3.779491e-06 9.997720e-01 2.242557e-04
YKL182W   9.983933e-01 1.606432e-03 3.083867e-07
YKL192C   1.067950e-03 9.989308e-01 1.295834e-06
YKL216W   9.999996e-01 3.472570e-07 3.192045e-09
YKR039W   1.000000e+00 2.389517e-08 2.420347e-10
YKR048C   6.001331e-06 2.354900e-03 9.976391e-01
YKR050W   6.087748e-06 2.361320e-03 9.976326e-01
YKR068C   1.113196e-06 9.871536e-01 1.284528e-02
YKR069W   1.289166e-06 9.879952e-01 1.200355e-02
YLL008W   6.291252e-04 9.993507e-01 2.018787e-05
YLL010C   8.066995e-04 9.991468e-01 4.651529e-05
YLR050C   2.826469e-05 9.986046e-01 1.367096e-03
YLR081W   7.085741e-03 9.929058e-01 8.467458e-06
YLR092W   3.621856e-05 9.998247e-01 1.391229e-04
YLR142W   6.848550e-01 3.143941e-01 7.508804e-04
YLR162W   2.956996e-04 3.667287e-01 6.329756e-01
YLR180W   9.993335e-01 5.136214e-06 6.613268e-04
YLR263W   9.999717e-01 2.819107e-05 6.443221e-08
YLR278C   3.629924e-05 9.969365e-01 3.027228e-03
YLR283W   8.537047e-05 9.983843e-01 1.530345e-03
YLR303W   5.844368e-05 9.998917e-01 4.983161e-05
YLR329W   9.997410e-01 2.570751e-04 1.916837e-06
YLR420W   9.999911e-01 7.368711e-06 1.564727e-06
YLR438W   9.998832e-01 8.362251e-05 3.322217e-05
YML018C   1.310589e-05 1.741004e-01 8.258865e-01
YML051W   9.999971e-01 2.933125e-06 7.777966e-09
YML054C   9.413125e-01 2.561241e-02 3.307505e-02
YML075C   9.999992e-01 7.347684e-07 6.293830e-08
YML121W   7.494111e-06 1.912498e-03 9.980800e-01
YML122C   1.776985e-04 5.451421e-01 4.546802e-01
YML123C   7.546490e-09 9.605120e-09 1.000000e+00
YMR061W   3.593795e-05 9.992532e-01 7.108496e-04
YMR108W   9.990635e-01 9.364497e-04 2.103032e-08
YMR133W   9.999230e-01 7.700360e-05 2.579370e-09
YMR216C   1.388800e-04 9.996899e-01 1.712511e-04
YMR217W   1.940710e-04 9.996811e-01 1.248048e-04
YMR253C   1.422121e-06 6.071588e-02 9.392827e-01
YMR255W   1.422121e-06 6.071588e-02 9.392827e-01
YMR271C   3.312819e-04 2.033175e-02 9.793370e-01
YMR301C   1.271180e-04 9.998729e-01 1.110390e-08
YNL052W   9.987404e-01 1.259180e-03 4.254754e-07
YNL104C   7.766560e-02 9.941212e-03 9.123932e-01
YNL142W   9.999971e-01 2.931816e-06 2.770898e-09
YNL210W   9.999973e-01 2.677124e-06 4.883671e-09
YNL231C   1.075843e-05 5.505518e-05 9.999342e-01
YNL241C   9.999983e-01 1.369817e-07 1.523121e-06
YNL259C   5.249328e-07 9.999995e-01 5.944678e-09
YNL260C   2.016372e-06 9.999980e-01 1.653257e-09
YNL277W   3.191144e-08 9.999986e-01 1.325628e-06
YNR001C   1.000000e+00 5.744182e-09 4.211224e-09
YNR050C   9.851307e-01 1.198552e-03 1.367070e-02
YOL006C   9.999122e-01 8.163470e-05 6.132806e-06
YOL100W   5.074672e-05 9.650762e-01 3.487304e-02
YOR054C   6.871030e-06 9.457058e-01 5.428730e-02
YOR065W   7.290797e-01 1.050954e-01 1.658249e-01
YOR120W   9.997891e-01 2.105937e-04 2.625131e-07
YOR153W   9.995300e-01 4.099631e-04 5.999333e-05
YOR162C   1.271810e-04 2.351566e-04 9.996377e-01
YOR163W   1.187805e-04 1.864545e-04 9.996948e-01
YOR299W   1.114080e-03 9.988851e-01 8.593577e-07
YOR328W   9.997160e-01 2.748808e-04 9.093753e-06
YOR351C   9.998481e-01 1.519117e-04 1.976397e-08
YOR375C   9.999783e-01 1.155851e-06 2.052641e-05
YOR377W   1.279321e-04 7.457168e-02 9.253004e-01
YOR378W   3.194602e-05 9.999434e-01 2.460474e-05
YPL093W   7.960743e-04 9.992034e-01 5.398894e-07
YPL111W   9.999999e-01 5.411549e-08 3.611412e-09
YPL189W   7.437739e-06 9.985549e-01 1.437687e-03
YPL204W   4.710016e-06 9.999937e-01 1.541841e-06
YPL206C   4.440866e-06 9.999942e-01 1.403963e-06
YPL231W   9.965172e-01 1.176871e-03 2.305888e-03
YPL250C   5.348195e-05 9.881093e-01 1.183720e-02
YPR065W   5.357076e-01 4.642563e-01 3.612480e-05
YPR138C   1.000000e+00 7.223601e-09 9.189765e-11
YPR145W   9.965361e-01 3.313296e-03 1.506298e-04
YPR167C   9.949663e-04 9.990007e-01 4.345586e-06
YPR199C   1.608266e-04 9.981097e-01 1.729479e-03
YPR201W   4.308196e-04 9.987305e-01 8.386320e-04

$best.pda$best.pda$call
lda(x = data.training, grouping = labels.training, CV = loo, 
    na.action = na.omit)

$best.pda$best.pda$training.names
  [1] "YAL002W"   "YAL038W"   "YAR064W"   "YAR069C"   "YAR070C"   "YAR071W"  
  [7] "YBL005W"   "YBL030C"   "YBR006W"   "YBR018C"   "YBR020W"   "YBR093C"  
 [13] "YBR115C"   "YBR184W"   "YBR213W"   "YBR222C"   "YBR296C"   "YCL018W"  
 [19] "YCR047C"   "YCR098C"   "YDL131W"   "YDL182W"   "YDL205C"   "YDL210W"  
 [25] "YDR011W"   "YDR023W"   "YDR041W"   "YDR044W"   "YDR054C"   "YDR055W"  
 [31] "YDR169C"   "YDR234W"   "YDR253C"   "YDR254W"   "YDR281C"   "YDR285W"  
 [37] "YDR310C"   "YDR311W"   "YDR381C-A" "YDR382W"   "YDR406W"   "YDR481C"  
 [43] "YDR502C"   "YDR508C"   "YDR510W"   "YEL017C-A" "YEL017W"   "YEL021W"  
 [49] "YEL039C"   "YEL044W"   "YEL046C"   "YER026C"   "YER086W"   "YER091C-A"
 [55] "YER091C"   "YER092W"   "YER125W"   "YER179W"   "YFL023W"   "YFL024C"  
 [61] "YFL031W"   "YFL032W"   "YFL033C"   "YFR030W"   "YGL009C"   "YGL055W"  
 [67] "YGL056C"   "YGL073W"   "YGL125W"   "YGL213C"   "YGR019W"   "YGR044C"  
 [73] "YGR088W"   "YGR121C"   "YGR154C"   "YGR155W"   "YGR157W"   "YGR204W"  
 [79] "YGR233C"   "YGR281W"   "YHL022C"   "YHL036W"   "YHR001W-A" "YHR007C"  
 [85] "YHR008C"   "YHR014W"   "YHR037W"   "YHR046C"   "YHR082C"   "YHR083W"  
 [91] "YHR089C"   "YHR107C"   "YHR136C"   "YHR137W"   "YHR153C"   "YHR168W"  
 [97] "YHR215W"   "YIL015W"   "YIL046W"   "YIL072W"   "YIL092W"   "YIL106W"  
[103] "YIL107C"   "YIL126W"   "YIL127C"   "YIR017C"   "YIR034C"   "YJL012C"  
[109] "YJL106W"   "YJL117W"   "YJL119C"   "YJL129C"   "YJL153C"   "YJL167W"  
[115] "YJL168C"   "YJL186W"   "YJL187C"   "YJL219W"   "YJR010W"   "YJR048W"  
[121] "YJR073C"   "YJR094C"   "YJR095W"   "YJR113C"   "YJR115W"   "YJR137C"  
[127] "YJR138W"   "YJR139C"   "YJR152W"   "YKL001C"   "YKL007W"   "YKL008C"  
[133] "YKL015W"   "YKL016C"   "YKL088W"   "YKL128C"   "YKL139W"   "YKL182W"  
[139] "YKL192C"   "YKL216W"   "YKR039W"   "YKR048C"   "YKR050W"   "YKR068C"  
[145] "YKR069W"   "YLL008W"   "YLL010C"   "YLR050C"   "YLR081W"   "YLR092W"  
[151] "YLR142W"   "YLR162W"   "YLR180W"   "YLR263W"   "YLR278C"   "YLR283W"  
[157] "YLR303W"   "YLR329W"   "YLR420W"   "YLR438W"   "YML018C"   "YML051W"  
[163] "YML054C"   "YML075C"   "YML121W"   "YML122C"   "YML123C"   "YMR061W"  
[169] "YMR108W"   "YMR133W"   "YMR216C"   "YMR217W"   "YMR253C"   "YMR255W"  
[175] "YMR271C"   "YMR301C"   "YNL052W"   "YNL104C"   "YNL142W"   "YNL210W"  
[181] "YNL231C"   "YNL241C"   "YNL259C"   "YNL260C"   "YNL277W"   "YNR001C"  
[187] "YNR050C"   "YOL006C"   "YOL100W"   "YOR054C"   "YOR065W"   "YOR120W"  
[193] "YOR153W"   "YOR162C"   "YOR163W"   "YOR299W"   "YOR328W"   "YOR351C"  
[199] "YOR375C"   "YOR377W"   "YOR378W"   "YPL093W"   "YPL111W"   "YPL189W"  
[205] "YPL204W"   "YPL206C"   "YPL231W"   "YPL250C"   "YPR065W"   "YPR138C"  
[211] "YPR145W"   "YPR167C"   "YPR199C"   "YPR201W"  

$best.pda$best.pda$training.label
  [1] PHO CTL MET PHO PHO PHO CTL CTL CTL CTL CTL PHO CTL CTL MET PHO PHO CTL
 [19] PHO PHO CTL CTL CTL CTL CTL MET PHO CTL PHO PHO PHO CTL MET MET PHO CTL
 [37] PHO PHO MET MET CTL PHO MET MET MET PHO PHO CTL CTL PHO PHO CTL CTL MET
 [55] MET MET MET CTL MET MET MET MET MET MET CTL MET MET CTL MET CTL CTL CTL
 [73] CTL CTL MET MET CTL MET PHO CTL CTL MET MET CTL CTL CTL CTL MET MET MET
 [91] MET PHO PHO PHO CTL PHO PHO CTL MET CTL MET MET MET MET MET MET CTL PHO
[109] CTL PHO PHO MET CTL MET MET MET MET CTL MET CTL CTL CTL MET MET MET MET
[127] MET MET CTL MET MET MET MET MET MET MET MET CTL MET CTL CTL PHO PHO MET
[145] MET MET MET MET CTL MET CTL MET MET CTL MET MET MET CTL CTL CTL PHO CTL
[163] CTL CTL PHO MET PHO MET CTL CTL MET MET PHO PHO PHO MET CTL CTL CTL CTL
[181] PHO MET MET MET MET CTL CTL CTL MET MET CTL CTL CTL PHO PHO MET CTL CTL
[199] CTL PHO MET MET CTL MET MET MET CTL MET CTL CTL CTL MET MET MET
Levels: CTL MET PHO

$best.pda$best.pda$pda.method
[1] "lda"

$best.pda$best.pda$loo
[1] TRUE

$best.pda$best.pda$validation
[1] "LOO"

$best.pda$best.pda$confusion
      true
object CTL MET PHO
   CTL  74   2   0
   MET   2  88   0
   PHO   4   2  42
attr(,"error")
[1] 0.04672897


$best.pda$best.p
[1] 13

$best.pda$best.vars
 [1]  4 10  1  7  3  8  2  5 12  9 11 15 14

$best.pda$best.var.names
 [1] "Pho4p.g.1" "Met4p.1"   "Pho4p.1"   "Pho4p.t.1" "Pho4p.3"   "Pho4p.t.2"
 [7] "Pho4p.2"   "Pho4p.g.2" "Met4p.3"   "Pho4p.t.3" "Met4p.2"   "Met31p.3" 
[13] "Met31p.2" 

$best.pda$best.error
[1] 0.04672897

$best.pda$pc.transform
[1] FALSE

$best.pda$var.order
 [1]  4 10  1  7  3  8  2  5 12  9 11 15 14  6 13


