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Computation of Gene Expression-Based Signatures in Breast Cancer

Bioconductor version: Release (3.19)

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>

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


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

if (!require("BiocManager", quietly = TRUE))


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


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

genefu: A Package For Breast Cancer Gene Expression Analysis HTML R Script
Reference Manual PDF


biocViews Classification, Clustering, DifferentialExpression, GeneExpression, Software, Visualization
Version 2.36.0
In Bioconductor since BioC 2.8 (R-2.13) (13.5 years)
License Artistic-2.0
Depends R (>= 4.1), survcomp, biomaRt, iC10, AIMS
Imports amap, impute, mclust, limma, graphics, stats, utils
System Requirements
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Suggests GeneMeta, breastCancerVDX, breastCancerMAINZ, breastCancerTRANSBIG, breastCancerUPP, breastCancerUNT, breastCancerNKI, rmeta, Biobase, xtable, knitr, caret, survival, BiocStyle, magick, rmarkdown
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Depends On Me
Imports Me consensusOV, PDATK
Suggests Me GSgalgoR, breastCancerMAINZ, breastCancerNKI, breastCancerTRANSBIG, breastCancerUNT, breastCancerUPP, breastCancerVDX
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Source Package genefu_2.36.0.tar.gz
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macOS Binary (x86_64) genefu_2.36.0.tgz
macOS Binary (arm64) genefu_2.36.0.tgz
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