genefu
Computation of Gene Expression-Based Signatures in Breast Cancer
Bioconductor version: 3.24 · Package version: 2.45.0
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("genefu") Details
| Maintainer | Benjamin Haibe-Kains <benjamin.haibe.kains@utoronto.ca> |
| 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], Jermiah Joseph [ctb], Benjamin Haibe-Kains [aut, cre] |
| License | Artistic-2.0 |
| URL | http://www.pmgenomics.ca/bhklab/software/genefu |
| Downloads rank | 1112 |
| Source branch | devel |
| biocViews | Classification, Clustering, DifferentialExpression, GeneExpression, Software, Visualization |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | genefu_2.45.0.tar.gz |
| Windows binary (x86_64) | genefu_2.45.0.zip |
| macOS binary (arm64) | genefu_2.45.0.tgz |
| macOS binary (x86_64) | genefu_2.45.0.tgz |
Dependencies
Depends: R (>= 4.1), survcomp, biomaRt, iC10, AIMS
Imports: amap, impute, mclust, limma, graphics, stats, utils, iC10TrainingData
Suggests: GeneMeta, breastCancerVDX, breastCancerMAINZ, breastCancerTRANSBIG, breastCancerUPP, breastCancerUNT, breastCancerNKI, rmeta, Biobase, xtable, knitr, caret, survival, BiocStyle, magick, rmarkdown
Reverse dependencies
Imports Me (2): consensusOV, PDATK
Suggests Me (7): breastCancerMAINZ, breastCancerNKI, breastCancerTRANSBIG, breastCancerUNT, breastCancerUPP, breastCancerVDX, GSgalgoR