tspair

DOI: 10.18129/B9.bioc.tspair    

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see tspair.

Top Scoring Pairs for Microarray Classification

Bioconductor version: 3.11

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>

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("tspair")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("tspair")

 

PDF	R Script	tspTutorial
PDF		Reference Manual

Details

biocViews	Microarray, Software
Version	1.46.0
In Bioconductor since	BioC 2.4 (R-2.9) (11.5 years)
License	GPL-2
Depends	R (>= 2.10), Biobase(>= 2.4.0)
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Package Archives

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

Source Package	tspair_1.46.0.tar.gz
Windows Binary	tspair_1.46.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra)	tspair_1.46.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/tspair
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/tspair
Package Short Url	https://bioconductor.org/packages/tspair/
Package Downloads Report	Download Stats