khan |
Khan microarray data |
pamr.adaptthresh |
A function to adaptive choose threshold scales, for use in pamr.train |
pamr.batchadjust |
A function to mean-adjust microarray data by batches |
pamr.confusion |
A function giving a table of true versus predicted values, from a |
pamr.confusion.survival |
Compute confusin matrix from pamr survival fit |
pamr.cv |
A function to cross-validate the nearest shrunken centroid classifier |
pamr.decorrelate |
A function to decorrelate (adjust) the feature matrix with respect to |
pamr.fdr |
A function to estimate false discovery rates for the nearest shrunken |
pamr.from.excel |
A function to read in a text file saved from Excel |
pamr.geneplot |
A function to plot the genes that surive the thresholding from the |
pamr.indeterminate |
A function that takes estimate class probabilities and produces a class |
pamr.knnimpute |
A function to impute missing expression data |
pamr.listgenes |
A function to list the genes that survive the thresholding, from the |
pamr.makeclasses |
A function to interactively define classes from a clustering tree |
pamr.menu |
A function that interactively leads the user through a PAM analysis |
pamr.plotcen |
A function to plot the shrunken class centroids, from the nearest |
pamr.plotcv |
A function to plot the cross-validated error curves from the nearest |
pamr.plotcvprob |
A function to plot the cross-validated sample probabilities from the |
pamr.plotfdr |
A function to plot the FDR curve from the nearest shrunken centroid |
pamr.plotstrata |
A function to plot the survival curves in each Kaplan Meier stratum |
pamr.plotsurvival |
A function to plots Kaplan-Meier curves stratified by a group variable |
pamr.predict |
A function giving prediction information, from a nearest shrunken |
pamr.predictmany |
A function giving prediction information for many threshold values, |
pamr.surv.to.class2 |
A function to assign observations to categories, based on their |
pamr.test.errors.surv.compute |
A function giving a table of true versus predicted values, from a |
pamr.to.excel |
A function to write out a data object into a tab-delimited text file |
pamr.train |
A function to train a nearest shrunken centroid classifier |