R function Description
cox.func Given an expression matrix and a list of survival times,
coxscor computes the Cox score of each gene
coxstuff
coxvar
find.surv.ndx Used to implement the "median cut method" described in
Section 5.2
gen.y.mat
get.mle.class
kmeans2 A modified version of the k-means clustering procedure;
it performs k-means clustering multiple times with
random starting points
pamr.cv.cox Performs the cross-validation for the supervised
clustering procedure of Section 5.3
pcm.cv Performs the cross-validation for the supervised
principal components method of Section 5.4
pls.comp1 Given an expression matrix X and a response vector y,
computes the first partial least squares direction