pathVar

DOI: 10.18129/B9.bioc.pathVar    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see pathVar.

Methods to Find Pathways with Significantly Different Variability

Bioconductor version: 3.9

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 "3.6") 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	1.14.0
In Bioconductor since	BioC 3.2 (R-3.2) (4 years)
License	LGPL (>= 2.0)
Depends	R (>= 3.3.0), methods, ggplot2, gridExtra
Imports	EMT, mclust, Matching, data.table, stats, grDevices, graphics, utils
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	pathVar_1.14.0.tar.gz
Windows Binary	pathVar_1.14.0.zip
Mac OS X 10.11 (El Capitan)	pathVar_1.14.0.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	https://bioconductor.org/packages/pathVar/
Package Downloads Report	Download Stats