tspair

Top Scoring Pairs for Microarray Classification

Bioconductor version: 2.8

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 <jtleek at jhu.edu>

Maintainer: Jeffrey T. Leek <jtleek at jhu.edu>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("tspair")

To cite this package in a publication, start R and enter:

    citation("tspair")

Documentation

PDF tsp1.pdf
PDF R Script tspTutorial
PDF   Reference Manual

Details

biocViews Microarray, Bioinformatics
Depends R (>= 2.2.1), Biobase(>= 2.4.0), time
Imports
Suggests
System Requirements
License GPL-2
URL
Depends On Me
Imports Me
Suggests Me
Version 1.10.0
Since Bioconductor 2.4 (R-2.9)

Package Downloads

Package Source tspair_1.10.0.tar.gz
Windows Binary tspair_1.10.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary tspair_1.10.0.tgz
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