tspair

DOI: 10.18129/B9.bioc.tspair  

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.16 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see tspair.

Top Scoring Pairs for Microarray Classification

Bioconductor version: 3.16

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 "4.2") and enter:

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

BiocManager::install("tspair")

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

Documentation

PDF		Reference Manual

Details

biocViews	Microarray, Software
Version	1.56.0
In Bioconductor since	BioC 2.4 (R-2.9) (14 years)
License	GPL-2
Depends	R (>= 2.10), Biobase(>= 2.4.0)
Imports
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
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