These functions calculate the pair of genes that show the maximum difference in ranking between two user specified groups. This "top scoring pair" maximizes the average of sensitivity and specificity over all rank based classifiers using a pair of genes in the data set. The advantage of classifying samples based on only the relative rank of a pair of genes is (a) the classifiers are much simpler and often more interpretable than more complicated classification schemes and (b) if arrays can be classified using only a pair of genes, PCR based tests could be used for classification of samples. See the references for the tspcalc() function for references regarding TSP classifiers.
|Author||Jeffrey T. Leek <firstname.lastname@example.org>|
|Date of publication||None|
|Maintainer||Jeffrey T. Leek <email@example.com>|
dat: Simulated gene expression data.
dat2: Simulated gene expression data.
eSet1: A simulated expression set.
eSet2: A simulated expression set.
grp: A group indicator.
plot.tsp: Graphical display of tsp objects
predict.tsp: Prediction based on a tsp object
summary.tsp: Summary of a tsp object
ts.pair: Calculation of top scoring pairs.
tspcalc: Estimate top scoring pairs from a gene expression matrix
tspdata: Simulated gene expression data in both matrix and expression...
tspplot: Graphical display of tsp objects
tspsig: Significance calculation for top scoring pairs