To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("tspair")

In most cases, you don't need to download the package archive at all.

tspair

   

This package is for version 2.12 of Bioconductor; for the stable, up-to-date release version, see tspair.

Top Scoring Pairs for Microarray Classification

Bioconductor version: 2.12

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>

Citation (from within R, enter citation("tspair")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("tspair")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("tspair")

 

PDF tsp1.pdf
PDF R Script tspTutorial
PDF   Reference Manual

Details

biocViews Bioinformatics, Microarray, Software
Version 1.18.0
In Bioconductor since BioC 2.4 (R-2.9) (7 years)
License GPL-2
Depends R (>= 2.10), Biobase(>= 2.4.0)
Imports
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me stepwiseCM
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source tspair_1.18.0.tar.gz
Windows Binary tspair_1.18.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) tspair_1.18.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/tspair/tree/release-2.12
Package Short Url http://bioconductor.org/packages/tspair/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

Fred Hutchinson Cancer Research Center