GSCA

DOI: 10.18129/B9.bioc.GSCA    

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

GSCA: Gene Set Context Analysis

Bioconductor version: 3.8

GSCA takes as input several lists of activated and repressed genes. GSCA then searches through a compendium of publicly available gene expression profiles for biological contexts that are enriched with a specified pattern of gene expression. GSCA provides both traditional R functions and interactive, user-friendly user interface.

Author: Zhicheng Ji, Hongkai Ji

Maintainer: Zhicheng Ji <zji4 at jhu.edu>

Installation

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

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

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("GSCA")

 

PDF	R Script	GSCA
PDF		Reference Manual
Text		NEWS

Details

biocViews	GUI, GeneExpression, Software, Visualization
Version	2.12.0
In Bioconductor since	BioC 2.14 (R-3.1) (5 years)
License	GPL(>=2)
Depends	shiny, sp, gplots, ggplot2, reshape2, RColorBrewer, rhdf5, R (>= 2.10.0)
Imports	graphics
LinkingTo
Suggests	Affyhgu133aExpr, Affymoe4302Expr, Affyhgu133A2Expr, Affyhgu133Plus2Expr
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	GSCA_2.12.0.tar.gz
Windows Binary	GSCA_2.12.0.zip
Mac OS X 10.11 (El Capitan)	GSCA_2.12.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GSCA
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GSCA
Package Short Url	http://bioconductor.org/packages/GSCA/
Package Downloads Report	Download Stats