Last data update: 2014.03.03
R: Estimation of misclassification error by cross-validation
MCRestimate R Documentation
Estimation of misclassification error by cross-validation
Description
Several repetitions of a cross-validation are performed to
get 'votes' how stable a method is against different partitions into
training and test set
Usage
MCRestimate(eset,
class.column,
reference.class=NULL,
classification.fun,
variableSel.fun="identity",
cluster.fun="identity",
poss.parameters=list(),
cross.outer=10,
cross.repeat=3,
cross.inner=cross.outer,
plot.label=NULL,
rand=123,
stratify=FALSE,
information=TRUE,
block.column=NULL,
thePreprocessingMethods=c(variableSel.fun,cluster.fun))
Arguments
eset
an object of class ExpressionSet
class.column
a number or a character string which indicates the column of the
expression set's phenodata containing the class label
reference.class
a character string - the name of one class - if
specified, the class will form the first class and all the other classes
will form the second class
classification.fun
character string which names the function that should be used for the classification
variableSel.fun
character string which names the function that should be used for the variable selection
cluster.fun
character string which names the function that
should be used for the clustering of variables
thePreprocessingMethods
vector of character with the names of
all preprocessing functions - can be used instead of 'variableSel.fun' and 'cluster.fun' - see details
poss.parameters
a list of possible values for the parameter of the classification, variable selection, and cluster methods
cross.outer
integer - the number of nearly equal sized parts the sample set should be divided into (outer cross-validation)
cross.repeat
integer - the number of repetitions of the cross-validation procedure
cross.inner
integer - the number of nearly equal sized parts the train set should be divided into (inner cross-validation)
plot.label
name of one column of the phenodata- if specified, the content of this column will form the labels of the x-axis if the 'votematrix' will be plotted with plot.MCRestimate
rand
integer - the random number generator will be put in a reproducible state
stratify
should a stratified version be used for the cross validation?
block.column
a character string which indicates the column of the
expression set's phenodata containing the blocking covariate, which sets
a constrain on the cross-validation splits: each block is either
completely assigned to the test or to the training set
information
information - should classifier specific data be given(depends on the wrapper for the classification method)
Details
The argument 'thePreprocessingMethods' can be used instead of
'variableSel.fun'
and 'cluster.fun'. In the first versions of MCRestimate it was only
possible to have one variable selection and one cluster
functions. Now it is possible to have more than two functions and the
ordering is arbitrary, e.g. you can have a variable selection
function, then a cluster function and then a second variable
selection function.
If MCRestimate is used with an object of class
exprSetRG-class
, the preprocessing steps can use the
green and the red channel separately but the classification methods
works with green channel - red channel.
Note: 'correct prediction' means that a sample was predicted to be
a member of the correct class at least as often as it was predicted to
be a member of each other class. So in the two class problem a sample
is also 'correct' if it has been predicted correctly half of the time.
Value
an object of class MCRestimate
which is a list
with fourteen arguments:
votes
a matrix consisting of the different votes for each sample
classes
the class of each sample
table
a 'confusion' table, shows the number of 'correct prediction' for each class
correct.prediction
a logical vector - indicates if a sample was
predicted to be a member of the correct class at least as often as it was predicted to be a member of each other class.
correct.class.vote
vector that contains for every sample the vote for it's correct class
parameter
a list consisting of the estimated 'best' parameter for each cross-validation part
class.method
string which names the function used for the classification
thePreprocessingMethods
character string - name of the preprocessing functions that have been used
cross.outer
number of blocks for a the outer cross-validation
cross.repeat
number of outer cross-validation repetitions
cross.inner
number of blocks for a the inner cross-validation
sample.names
names of the sample
information
classifier specific data (if information is TRUE)
Author(s)
Markus Ruschhaupt mailto:m.ruschhaupt@dkfz.de ,
contributions from Andreas Buness and Patrick Warnat
Examples
library(golubEsets)
data(Golub_Test)
G2 <- Golub_Test[1:500,]
result <- MCRestimate(G2, "ALL.AML", classification.fun="RF.wrap",
cross.outer=4, cross.repeat=3)
result
if (interactive()) {
x11(width=9, height=4)}
plot(result)
Results
R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(MCRestimate)
Loading required package: golubEsets
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
rbind, rownames, sapply, setdiff, sort, table, tapply, union,
unique, unsplit
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: 'MCRestimate'
The following object is masked from 'package:base':
identity
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/MCRestimate/MCRestimate.Rd_%03d_medium.png", width=480, height=480)
> ### Name: MCRestimate
> ### Title: Estimation of misclassification error by cross-validation
> ### Aliases: MCRestimate MCRestimate.default print.MCRestimate
> ### Keywords: file
>
> ### ** Examples
>
> library(golubEsets)
> data(Golub_Test)
> G2 <- Golub_Test[1:500,]
> result <- MCRestimate(G2, "ALL.AML", classification.fun="RF.wrap",
+ cross.outer=4, cross.repeat=3)
> result
$votes
ALL AML
ALL 0.6666667 0.3333333
ALL 0.3333333 0.6666667
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 0.6666667 0.3333333
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
ALL 0.6666667 0.3333333
ALL 1.0000000 0.0000000
ALL 1.0000000 0.0000000
AML 0.0000000 1.0000000
AML 0.0000000 1.0000000
AML 0.3333333 0.6666667
AML 0.0000000 1.0000000
AML 1.0000000 0.0000000
AML 0.6666667 0.3333333
AML 0.0000000 1.0000000
AML 0.3333333 0.6666667
AML 0.3333333 0.6666667
AML 0.6666667 0.3333333
AML 1.0000000 0.0000000
AML 0.3333333 0.6666667
AML 0.0000000 1.0000000
AML 0.0000000 1.0000000
$classes
[1] ALL ALL ALL ALL ALL ALL ALL ALL ALL ALL ALL ALL ALL ALL ALL ALL ALL ALL ALL
[20] ALL AML AML AML AML AML AML AML AML AML AML AML AML AML AML
Levels: ALL AML
$table
ALL AML class error
ALL 19 1 0.0500000
AML 4 10 0.2857143
$correct.prediction
[1] TRUE FALSE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
[13] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
[25] FALSE FALSE TRUE TRUE TRUE FALSE FALSE TRUE TRUE TRUE
$correct.class.vote
[1] 0.6666667 0.3333333 1.0000000 1.0000000 1.0000000 0.6666667 1.0000000
[8] 1.0000000 1.0000000 1.0000000 1.0000000 1.0000000 1.0000000 1.0000000
[15] 1.0000000 1.0000000 1.0000000 0.6666667 1.0000000 1.0000000 1.0000000
[22] 1.0000000 0.6666667 1.0000000 0.0000000 0.3333333 1.0000000 0.6666667
[29] 0.6666667 0.3333333 0.0000000 0.6666667 1.0000000 1.0000000
$parameter
list()
$class.method
[1] "RF.wrap"
$thePreprocessingMethods
[1] "identity" "identity"
$cross.outer
[1] 4
$cross.inner
[1] 4
$cross.repeat
[1] 3
$sample.names
[1] 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25
[26] 26 27 28 29 30 31 32 33 34
$information
$information[[1]]
ALL
D28423_at "D28423_at" "0.0104428571428571"
AC002077_at "AC002077_at" "0.00703174603174603"
D14664_at "D14664_at" "0.00807142857142857"
D13988_at "D13988_at" "0.00336349206349206"
D26579_at "D26579_at" "0.00518809523809524"
AF000234_at "AF000234_at" "0.0052"
D10495_at "D10495_at" "0.00393333333333333"
D21852_at "D21852_at" "0.00384523809523809"
D31846_at "D31846_at" "0.0032"
D21261_at "D21261_at" "0.00436666666666667"
D30742_at "D30742_at" "0.00295238095238095"
D13628_at "D13628_at" "0.00266666666666667"
AFFX-BioDn-3_st "AFFX-BioDn-3_st" "0.00465714285714286"
D31764_at "D31764_at" "0.00291904761904762"
D43947_at "D43947_at" "0.00296666666666667"
D10202_at "D10202_at" "0.0016"
D28532_at "D28532_at" "0.00211904761904762"
D26443_at "D26443_at" "0.0026"
D16581_at "D16581_at" "0.00253333333333333"
D49958_at "D49958_at" "0.00232380952380952"
D50920_at "D50920_at" "0.00123809523809524"
D14660_at "D14660_at" "0.00163333333333333"
D38293_at "D38293_at" "0.00157142857142857"
AC000064_cds1_at "AC000064_cds1_at" "0.00106666666666667"
AB000115_at "AB000115_at" "0.0015"
D50914_at "D50914_at" "0.0014"
D17400_at "D17400_at" "0.000923809523809524"
D49400_at "D49400_at" "0.00100476190476191"
D50919_at "D50919_at" "0.000833333333333333"
D50525_at "D50525_at" "0.00121428571428571"
D00760_at "D00760_at" "9e-04"
D26135_at "D26135_at" "0.00188333333333333"
D30655_at "D30655_at" "0.00116666666666667"
AFFX-HUMRGE/M10098_M_at "AFFX-HUMRGE/M10098_M_at" "0.0012"
D13627_at "D13627_at" "0.0025"
D30755_at "D30755_at" "0.000833333333333333"
D26018_at "D26018_at" "9e-04"
D29643_at "D29643_at" "0.0014"
D14689_at "D14689_at" "0.00123809523809524"
AF006084_at "AF006084_at" "0.000447619047619048"
D29677_at "D29677_at" "9e-04"
AF015913_at "AF015913_at" "0.000952380952380952"
AC002115_cds4_at "AC002115_cds4_at" "0.00108333333333333"
AB000449_at "AB000449_at" "0.00025"
AFFX-M27830_5_at "AFFX-M27830_5_at" "0.0014"
AB002559_at "AB002559_at" "5e-04"
AF002700_at "AF002700_at" "8e-04"
D13637_at "D13637_at" "0.000233333333333333"
D25539_at "D25539_at" "0.000238095238095238"
D16626_at "D16626_at" "0.000766666666666667"
D23673_at "D23673_at" "2e-04"
D14678_at "D14678_at" "0.000733333333333333"
D43772_at "D43772_at" "0.000952380952380952"
D21063_at "D21063_at" "0.000333333333333333"
D38583_at "D38583_at" "0.00111428571428571"
D42046_at "D42046_at" "8e-04"
D50582_at "D50582_at" "0.000333333333333333"
D16469_at "D16469_at" "0.000285714285714286"
D29963_at "D29963_at" "0"
AF000562_at "AF000562_at" "0.000333333333333333"
AB000897_at "AB000897_at" "0.001"
AF009426_at "AF009426_at" "0.000666666666666667"
D29958_at "D29958_at" "9e-04"
D14889_at "D14889_at" "0.000833333333333333"
D37965_at "D37965_at" "0.0014"
D42063_at "D42063_at" "0.000571428571428571"
D49677_at "D49677_at" "8e-04"
D28124_at "D28124_at" "0.0015"
D50683_at "D50683_at" "0.000780952380952381"
D14658_at "D14658_at" "0"
D00596_at "D00596_at" "0.000571428571428571"
D30758_at "D30758_at" "-0.000452380952380952"
AB002409_at "AB002409_at" "5e-04"
AC002464_at "AC002464_at" "0.000333333333333333"
D00017_at "D00017_at" "0.000666666666666667"
D28416_at "D28416_at" "5e-04"
D49738_at "D49738_at" "0.000857142857142857"
AFFX-HSAC07/X00351_3_at "AFFX-HSAC07/X00351_3_at" "0.00128571428571429"
D28118_at "D28118_at" "5e-04"
D10923_at "D10923_at" "4e-04"
D28137_at "D28137_at" "0.000333333333333333"
D50857_at "D50857_at" "4e-04"
D29810_at "D29810_at" "0.000333333333333333"
D13315_at "D13315_at" "0.000914285714285714"
D00591_at "D00591_at" "4e-04"
D26068_at "D26068_at" "5e-04"
D26528_at "D26528_at" "4e-04"
D29833_at "D29833_at" "8e-04"
D43638_at "D43638_at" "0.000333333333333333"
D49489_at "D49489_at" "0.000285714285714286"
D29954_at "D29954_at" "0.000285714285714286"
D14811_at "D14811_at" "0.000333333333333333"
D42043_at "D42043_at" "-0.00025"
AFFX-BioC-3_at "AFFX-BioC-3_at" "0.000233333333333333"
AFFX-CreX-3_at "AFFX-CreX-3_at" "0.000333333333333333"
AF007875_at "AF007875_at" "5e-04"
AF015950_at "AF015950_at" "0.000785714285714286"
AFFX-TrpnX-3_at "AFFX-TrpnX-3_at" "0"
AFFX-M27830_M_at "AFFX-M27830_M_at" "0"
AFFX-HSAC07/X00351_5_st "AFFX-HSAC07/X00351_5_st" "0"
AC002115_cds1_at "AC002115_cds1_at" "0.000666666666666667"
AC002486_at "AC002486_at" "0.001"
AF006609_at "AF006609_at" "0"
D16294_at "D16294_at" "5e-04"
D25217_at "D25217_at" "0.000733333333333333"
AFFX-DapX-5_at "AFFX-DapX-5_at" "0"
AF014958_at "AF014958_at" "4e-04"
D14686_at "D14686_at" "0.000333333333333333"
D21260_at "D21260_at" "0"
D31767_at "D31767_at" "0"
D45248_at "D45248_at" "5e-04"
AFFX-BioB-M_st "AFFX-BioB-M_st" "0"
AFFX-CreX-3_st "AFFX-CreX-3_st" "0"
AFFX-HSAC07/X00351_M_at "AFFX-HSAC07/X00351_M_at" "5e-04"
A28102_at "A28102_at" "0"
D14827_at "D14827_at" "0.000666666666666667"
D21851_at "D21851_at" "0.000333333333333333"
D31797_at "D31797_at" "0"
D50310_at "D50310_at" "0.000333333333333333"
D50495_at "D50495_at" "0"
AF005361_at "AF005361_at" "0"
D10523_at "D10523_at" "0"
D13634_at "D13634_at" "0"
D31890_at "D31890_at" "0.000333333333333333"
D38535_at "D38535_at" "0"
AB000220_at "AB000220_at" "0.000333333333333333"
AC002450_at "AC002450_at" "0.000333333333333333"
AF002020_at "AF002020_at" "4e-04"
D38524_at "D38524_at" "0"
D50640_at "D50640_at" "0"
D50916_at "D50916_at" "0.00025"
D21878_at "D21878_at" "6.66666666666667e-05"
AFFX-ThrX-M_at "AFFX-ThrX-M_at" "0"
D50925_at "D50925_at" "0"
AB000464_at "AB000464_at" "0"
D17390_at "D17390_at" "0.000266666666666667"
D50312_at "D50312_at" "0.000222222222222222"
AFFX-HUMRGE/M10098_5_at "AFFX-HUMRGE/M10098_5_at" "0.000833333333333333"
D30037_at "D30037_at" "0"
AF009368_at "AF009368_at" "1e-04"
D14533_at "D14533_at" "0.000464285714285714"
D13630_at "D13630_at" "-4e-04"
D45371_at "D45371_at" "-4e-04"
D50928_at "D50928_at" "4e-04"
D29642_at "D29642_at" "-4.76190476190476e-05"
AFFX-BioC-3_st "AFFX-BioC-3_st" "-0.000285714285714286"
D26561_cds3_at "D26561_cds3_at" "0"
AML MeanDecreaseAccuracy
D28423_at "0.0135333333333333" "0.011341847041847"
AC002077_at "0.0134666666666667" "0.0088982683982684"
D14664_at "0.0078" "0.00777380952380952"
D13988_at "0.0100666666666667" "0.00522786657786658"
D26579_at "0.00563333333333333" "0.00507137862137862"
AF000234_at "0.00576666666666667" "0.00496904761904762"
D10495_at "0.00506666666666667" "0.00442539682539683"
D21852_at "0.00563333333333333" "0.00416955266955267"
D31846_at "0.00533333333333333" "0.00405476190476191"
D21261_at "0.00397142857142857" "0.00384920634920635"
D30742_at "0.00486666666666667" "0.00354054834054834"
D13628_at "0.00563333333333333" "0.00350613275613276"
AFFX-BioDn-3_st "0.0027" "0.00321839826839827"
D31764_at "0.0025" "0.00279545454545454"
D43947_at "0.0025" "0.00258333333333333"
D10202_at "0.0038" "0.00246031746031746"
D28532_at "0.003" "0.00237460317460317"
D26443_at "0.00183333333333333" "0.00218492063492064"
D16581_at "0.0017" "0.00196587301587302"
D49958_at "0.0013" "0.00194920634920635"
D50920_at "0.00313333333333333" "0.0017979797979798"
D14660_at "0.002" "0.00176666666666667"
D38293_at "0.0014" "0.00168760683760684"
AC000064_cds1_at "0.00196666666666667" "0.00145"
AB000115_at "0.00145238095238095" "0.0014493006993007"
D50914_at "0.0014" "0.0014"
D17400_at "0.00266666666666667" "0.00139393939393939"
D49400_at "0.00116666666666667" "0.00139278499278499"
D50919_at "0.00233333333333333" "0.00133116883116883"
D50525_at "0.0024" "0.00130555555555556"
D00760_at "0.002" "0.00128888888888889"
D26135_at "5e-04" "0.00127222222222222"
D30655_at "0.00166666666666667" "0.00123571428571429"
AFFX-HUMRGE/M10098_M_at "0.000952380952380952" "0.00122222222222222"
D13627_at "-0.000866666666666667" "0.00119242424242424"
D30755_at "0.00206666666666667" "0.00116666666666667"
D26018_at "0.00123333333333333" "0.00114285714285714"
D29643_at "0.000733333333333333" "0.00113181818181818"
D14689_at "0.000738095238095238" "0.00108405483405483"
AF006084_at "0.002" "0.00101839826839827"
D29677_at "0.00116666666666667" "0.00101587301587302"
AF015913_at "0.00113333333333333" "0.000977777777777778"
AC002115_cds4_at "0.00107142857142857" "0.000966666666666667"
AB000449_at "0.0025" "0.000952380952380952"
AFFX-M27830_5_at "0.000233333333333333" "0.000949494949494949"
AB002559_at "0.00216666666666667" "0.000944444444444444"
AF002700_at "0.001" "0.000916666666666667"
D13637_at "0.00166666666666667" "0.000892857142857143"
D25539_at "0.00206666666666667" "0.00089040404040404"
D16626_at "0.001" "0.000888888888888889"
D23673_at "0.00163333333333333" "0.000885714285714286"
D14678_at "0.00173333333333333" "0.000872222222222222"
D43772_at "0.000666666666666667" "0.000848484848484848"
D21063_at "0.0015" "0.000821428571428571"
D38583_at "-6.66666666666667e-05" "0.000805555555555556"
D42046_at "0.000766666666666666" "0.000767676767676768"
D50582_at "0.0024" "0.000738095238095238"
D16469_at "0.00166666666666667" "0.000733333333333333"
D29963_at "0.0025" "7e-04"
AF000562_at "0.000966666666666667" "0.000694444444444444"
AB000897_at "5e-04" "0.000666666666666667"
AF009426_at "0.000666666666666667" "0.000666666666666667"
D29958_at "0.000333333333333333" "0.00065"
D14889_at "0.000566666666666667" "0.000638888888888889"
D37965_at "0.000166666666666667" "0.000616666666666667"
D42063_at "0.000666666666666667" "6e-04"
D49677_at "4e-04" "6e-04"
D28124_at "-4e-04" "0.000585858585858586"
D50683_at "5e-04" "0.000577777777777778"
D14658_at "0.00146666666666667" "0.000555555555555556"
D00596_at "0.000433333333333333" "0.000550649350649351"
D30758_at "0.00266666666666667" "0.000533333333333333"
AB002409_at "5e-04" "5e-04"
AC002464_at "0.001" "5e-04"
D00017_at "0" "5e-04"
D28416_at "5e-04" "5e-04"
D49738_at "0" "5e-04"
AFFX-HSAC07/X00351_3_at "0" "0.000485714285714286"
D28118_at "0.000333333333333333" "0.000477777777777778"
D10923_at "5e-04" "0.000444444444444444"
D28137_at "0.000666666666666667" "0.000444444444444444"
D50857_at "5e-04" "0.000444444444444444"
D29810_at "5e-04" "0.000422222222222222"
D13315_at "-0.000366666666666667" "4e-04"
D00591_at "4e-04" "4e-04"
D26068_at "0.000333333333333333" "4e-04"
D26528_at "4e-04" "4e-04"
D29833_at "0" "4e-04"
D43638_at "5e-04" "4e-04"
D49489_at "0.000666666666666667" "4e-04"
D29954_at "0.000666666666666667" "0.000394444444444444"
D14811_at "4e-04" "0.000363636363636364"
D42043_at "0.00183333333333333" "0.000349350649350649"
AFFX-BioC-3_at "4e-04" "0.000344444444444444"
AFFX-CreX-3_at "0.000333333333333333" "0.000333333333333333"
AF007875_at "0" "0.000333333333333333"
AF015950_at "-0.000333333333333333" "0.000288888888888889"
AFFX-TrpnX-3_at "5e-04" "0.000285714285714286"
AFFX-M27830_M_at "0.001" "0.000285714285714286"
AFFX-HSAC07/X00351_5_st "0.002" "0.000285714285714286"
AC002115_cds1_at "0" "0.000285714285714286"
AC002486_at "0" "0.000285714285714286"
AF006609_at "0.000666666666666667" "0.000285714285714286"
D16294_at "0" "0.000285714285714286"
D25217_at "0" "0.000285714285714286"
AFFX-DapX-5_at "5e-04" "0.00025"
AF014958_at "0" "0.00025"
D14686_at "0" "0.00025"
D21260_at "0.000666666666666667" "0.00025"
D31767_at "0.000666666666666667" "0.00025"
D45248_at "0" "0.00025"
AFFX-BioB-M_st "5e-04" "0.000222222222222222"
AFFX-CreX-3_st "0.000666666666666667" "0.000222222222222222"
AFFX-HSAC07/X00351_M_at "0" "0.000222222222222222"
A28102_at "0.000666666666666667" "0.000222222222222222"
D14827_at "-0.000114285714285714" "0.000222222222222222"
D21851_at "0" "0.000222222222222222"
D31797_at "0.001" "0.000222222222222222"
D50310_at "0" "0.000222222222222222"
D50495_at "5e-04" "0.000222222222222222"
AF005361_at "0.000666666666666667" "2e-04"
D10523_at "0.000333333333333333" "2e-04"
D13634_at "4e-04" "2e-04"
D31890_at "0" "2e-04"
D38535_at "0.001" "2e-04"
AB000220_at "0" "0.000181818181818182"
AC002450_at "0" "0.000181818181818182"
AF002020_at "0" "0.000181818181818182"
D38524_at "0.000333333333333333" "0.000181818181818182"
D50640_at "0.000333333333333333" "0.000181818181818182"
D50916_at "0" "0.000181818181818182"
D21878_at "4e-04" "0.000177777777777778"
AFFX-ThrX-M_at "0.000333333333333333" "0.000166666666666667"
D50925_at "0.000666666666666667" "0.000166666666666667"
AB000464_at "8e-04" "0.000155844155844156"
D17390_at "-2e-04" "0.000155844155844156"
D50312_at "0" "0.000153846153846154"
AFFX-HUMRGE/M10098_5_at "-0.000666666666666667" "0.000138888888888889"
D30037_at "0.000233333333333333" "0.000122222222222222"
AF009368_at "5e-04" "0.000113492063492063"
D14533_at "-5e-04" "0.000103896103896104"
D13630_at "0.00166666666666667" "8.63636363636364e-05"
D45371_at "0.000833333333333333" "8.63636363636364e-05"
D50928_at "-0.000666666666666667" "8.57142857142857e-05"
D29642_at "0" "5.55555555555556e-05"
AFFX-BioC-3_st "0.001" "5e-05"
D26561_cds3_at "-1e-04" "4.04040404040404e-05"
MeanDecreaseGini
D28423_at "0.364679018759019"
AC002077_at "0.333154977636742"
D14664_at "0.229628646616541"
D13988_at "0.23146454630337"
D26579_at "0.188181687902741"
AF000234_at "0.224761970121382"
D10495_at "0.239789588320176"
D21852_at "0.158556834733894"
D31846_at "0.212366678728908"
D21261_at "0.181696726431463"
D30742_at "0.144083886677478"
D13628_at "0.114940608875129"
AFFX-BioDn-3_st "0.125547287827412"
D31764_at "0.128161383851786"
D43947_at "0.149543478946234"
D10202_at "0.144578345864662"
D28532_at "0.0977589477189477"
D26443_at "0.0688419607843137"
D16581_at "0.0701639340776183"
D49958_at "0.0557576470588235"
D50920_at "0.0971725568549098"
D14660_at "0.080842481962482"
D38293_at "0.116814544165844"
AC000064_cds1_at "0.104948534798535"
AB000115_at "0.0183681246857717"
D50914_at "0.0394925101214575"
D17400_at "0.0652403418803419"
D49400_at "0.129609645995559"
D50919_at "0.0311970382558618"
D50525_at "0.0726114860303096"
D00760_at "0.101521800552389"
D26135_at "0.0892974667437825"
D30655_at "0.116326954418131"
AFFX-HUMRGE/M10098_M_at "0.0347047619047619"
D13627_at "0.136803640456551"
D30755_at "0.0836722222222222"
D26018_at "0.0497268111455108"
D29643_at "0.0850120353021591"
D14689_at "0.0932607692307692"
AF006084_at "0.0904360173160173"
D29677_at "0.0434835294117647"
AF015913_at "0.0469584642979999"
AC002115_cds4_at "0.0799843274853801"
AB000449_at "0.031392673992674"
AFFX-M27830_5_at "0.144860856865872"
AB002559_at "0.0681041722329958"
AF002700_at "0.0316187581699346"
D13637_at "0.0729280213903743"
D25539_at "0.0282735042735043"
D16626_at "0.057041124871001"
D23673_at "0.0549181436657598"
D14678_at "0.0625858925388337"
D43772_at "0.0342"
D21063_at "0.0603604626092861"
D38583_at "0.165653515689677"
D42046_at "0.0382203751803752"
D50582_at "0.0320406349206349"
D16469_at "0.02753"
D29963_at "0.0548937995337995"
AF000562_at "0.075269494949495"
AB000897_at "0.00375"
AF009426_at "0.0299822222222222"
D29958_at "0.00747899159663866"
D14889_at "0.0394105263157895"
D37965_at "0.0131356725146199"
D42063_at "0.00923076923076923"
D49677_at "0.0422618487394958"
D28124_at "0.028574358974359"
D50683_at "0.035768354978355"
D14658_at "0.109635075773899"
D00596_at "0.131057777777778"
D30758_at "0.10420682878525"
AB002409_at "0.007"
AC002464_at "0.0183247863247863"
D00017_at "0.0246010256410256"
D28416_at "0.0425169590643275"
D49738_at "0.0217695238095238"
AFFX-HSAC07/X00351_3_at "0.0183698701298701"
D28118_at "0.0404444444444444"
D10923_at "0.0512266666666667"
D28137_at "0.0142698412698413"
D50857_at "0.00375"
D29810_at "0.0183940106951872"
D13315_at "0.121689962651727"
D00591_at "0.0113333333333333"
D26068_at "0.02744"
D26528_at "0.0101052631578947"
D29833_at "0.0038"
D43638_at