pamr.plotcvprob

0th

Percentile

A function to plot the cross-validated sample probabilities from the nearest shrunken centroid classifier

A function to plot the cross-validated sample probabilities from the nearest shrunken centroid classifier

Usage
pamr.plotcvprob(fit, data, threshold)
Arguments
fit

The result of a call to pamr.cv

data

A list with at least two components: x- an expression genes in the rows, samples in the columns), and y- a vector of the class labels for each sample. Same form as data object used by pamr.train.

threshold

Threshold value to be used

Details

pamr.plotcvprob plots the cross-validated sample probabilities the from nearest shrunken centroid classifier, stratified by the true classses.

Aliases
  • pamr.plotcvprob
Examples
# NOT RUN {
suppressWarnings(RNGversion("3.5.0"))
set.seed(120)
x <- matrix(rnorm(1000*20),ncol=20)
y <- sample(c(1:4),size=20,replace=TRUE)
mydata <- list(x=x,y=y)
mytrain <-   pamr.train(mydata)
mycv <-  pamr.cv(mytrain,mydata)
pamr.plotcvprob(mycv,mydata,threshold=1.6)



# }
Documentation reproduced from package pamr, version 1.56.1, License: GPL-2

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