genefu

This package is for version 3.20 of Bioconductor; for the stable, up-to-date release version, see genefu.

Computation of Gene Expression-Based Signatures in Breast Cancer

Bioconductor version: 3.20

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 [aut], Natchar Ratanasirigulchai [aut], Markus S. Schroeder [aut], Laia Pare [aut], Joel S Parker [aut], Aleix Prat [aut], Nikta Feizi [ctb], Christopher Eeles [ctb], Benjamin Haibe-Kains [aut, cre]

Maintainer: Benjamin Haibe-Kains <benjamin.haibe.kains at utoronto.ca>

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

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("genefu")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation


Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Classification, Clustering, DifferentialExpression, GeneExpression, Software, Visualization
Version	2.37.0
In Bioconductor since	BioC 2.8 (R-2.13) (14 years)
License	Artistic-2.0
Depends	R (>= 4.1), survcomp, biomaRt, iC10, AIMS
Imports	amap, impute, mclust, limma, graphics, stats, utils
System Requirements
URL	http://www.pmgenomics.ca/bhklab/software/genefu

Suggests	GeneMeta, breastCancerVDX, breastCancerMAINZ, breastCancerTRANSBIG, breastCancerUPP, breastCancerUNT, breastCancerNKI, rmeta, Biobase, xtable, knitr, caret, survival, BiocStyle, magick, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package
Windows Binary (x86_64)
macOS Binary (x86_64)
macOS Binary (arm64)	genefu_2.37.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/genefu
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/genefu
Bioc Package Browser	https://code.bioconductor.org/browse/genefu/
Package Short Url	https://bioconductor.org/packages/genefu/
Package Downloads Report	Download Stats