genefu

DOI: 10.18129/B9.bioc.genefu    

Computation of Gene Expression-Based Signatures in Breast Cancer

Bioconductor version: Release (3.6)

Description: This package contains functions implementing various tasks usually required by gene expression analysis, especially in breast cancer studies: gene mapping between different microarray platforms, identification of molecular subtypes, implementation of published gene signatures, gene selection, and survival analysis.

Author: Deena M.A. Gendoo, Natchar Ratanasirigulchai, Markus S. Schroder, Laia Pare, Joel S. Parker, Aleix Prat, and Benjamin Haibe-Kains

Maintainer: Benjamin Haibe-Kains <benjamin.haibe.kains at utoronto.ca>, Markus Schroeder <markus.schroeder at ucdconnect.ie>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("genefu")

Documentation

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

browseVignettes("genefu")

 

PDF	R Script	genefu An Introduction (HowTo)
PDF		Reference Manual
Text		README

Details

biocViews	Classification, Clustering, DifferentialExpression, GeneExpression, Software, Visualization
Version	2.11.2
In Bioconductor since	BioC 2.8 (R-2.13) (7 years)
License	Artistic-2.0
Depends	survcomp, mclust, limma, biomaRt, iC10, AIMS, R (>= 2.10)
Imports	amap
LinkingTo
Suggests	GeneMeta, breastCancerVDX, breastCancerMAINZ, breastCancerTRANSBIG, breastCancerUPP, breastCancerUNT, breastCancerNKI, rmeta, Biobase, xtable, knitr, caret, survival
SystemRequirements
Enhances
URL	http://www.pmgenomics.ca/bhklab/software/genefu
Depends On Me	pbcmc
Imports Me	consensusOV
Suggests Me	breastCancerMAINZ, breastCancerNKI, breastCancerTRANSBIG, breastCancerUNT, breastCancerUPP, breastCancerVDX
Build Report

Package Archives

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

Source Package	genefu_2.11.2.tar.gz
Windows Binary	genefu_2.11.2.zip
Mac OS X 10.11 (El Capitan)	genefu_2.11.2.tgz
Source Repository	git clone https://git.bioconductor.org/packages/genefu
Package Short Url	http://bioconductor.org/packages/genefu/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.6	Source Archive