To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("categoryCompare")

In most cases, you don't need to download the package archive at all.

categoryCompare

 

Meta-analysis of high-throughput experiments using feature annotations

Bioconductor version: Release (3.1)

Calculates significant annotations (categories) in each of two (or more) feature (i.e. gene) lists, determines the overlap between the annotations, and returns graphical and tabular data about the significant annotations and which combinations of feature lists the annotations were found to be significant. Interactive exploration is facilitated through the use of RCytoscape (heavily suggested).

Author: Robert M. Flight <rflight79 at gmail.com>

Maintainer: Robert M. Flight <rflight79 at gmail.com>

Citation (from within R, enter citation("categoryCompare")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("categoryCompare")

Documentation

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

browseVignettes("categoryCompare")

 

HTML R Script categoryCompare: High-throughput data meta-analysis using feature annotations
PDF   Reference Manual
Text   NEWS

Details

biocViews Annotation, GO, GeneExpression, MultipleComparison, Pathways, Software
Version 1.12.0
In Bioconductor since BioC 2.10 (R-2.15) (3.5 years)
License GPL-2
Depends R (>= 2.10), Biobase, BiocGenerics(>= 0.13.8)
Imports AnnotationDbi, hwriter, GSEABase, Category(>= 2.33.1), GOstats, annotate, colorspace, graph, RCytoscape(>= 1.5.11)
LinkingTo
Suggests knitr, methods, GO.db, KEGG.db, estrogen, org.Hs.eg.db, hgu95av2.db, limma, affy, genefilter
SystemRequirements Cytoscape (>= 2.8.0) (if used for visualization of results, heavily suggested), CytoscapeRPC plugin (>= 1.8)
Enhances
URL https://github.com/rmflight/categoryCompare
BugReports https://github.com/rmflight/categoryCompare/issues
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source categoryCompare_1.12.0.tar.gz
Windows Binary categoryCompare_1.12.0.zip
Mac OS X 10.6 (Snow Leopard) categoryCompare_1.12.0.tgz
Mac OS X 10.9 (Mavericks) categoryCompare_1.12.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/categoryCompare/tree/release-3.1
Package Short Url http://bioconductor.org/packages/categoryCompare/
Package Downloads Report Download Stats

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