pathVar

DOI: 10.18129/B9.bioc.pathVar    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see pathVar.

Methods to Find Pathways with Significantly Different Variability

Bioconductor version: 3.8

This package contains the functions to find the pathways that have significantly different variability than a reference gene set. It also finds the categories from this pathway that are significant where each category is a cluster of genes. The genes are separated into clusters by their level of variability.

Author: Laurence de Torrente, Samuel Zimmerman, Jessica Mar

Maintainer: Samuel Zimmerman <samuel.e.zimmerman at gmail.com>

Installation

To install this package, start R (version "3.5") and enter:

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

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("pathVar")

 

PDF	R Script	Tutorial on How to Use the Functions in the \texttt{PathVar} Package
PDF		Reference Manual
Text		NEWS

Details

biocViews	GeneSetEnrichment, GeneticVariability, Pathways, Software
Version	1.12.0
In Bioconductor since	BioC 3.2 (R-3.2) (3.5 years)
License	LGPL (>= 2.0)
Depends	R (>= 3.3.0), methods, ggplot2, gridExtra
Imports	EMT, mclust, Matching, data.table, stats, grDevices, graphics, utils
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Package Archives

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

Source Package	pathVar_1.12.0.tar.gz
Windows Binary	pathVar_1.12.0.zip
Mac OS X 10.11 (El Capitan)	pathVar_1.12.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/pathVar
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/pathVar
Package Short Url	http://bioconductor.org/packages/pathVar/
Package Downloads Report	Download Stats