consensusOV
Gene expression-based subtype classification for high-grade serous ovarian cancer
Bioconductor version: 3.23 · Package version: 1.34.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
This package implements four major subtype classifiers for high-grade serous (HGS) ovarian cancer as described by Helland et al. (PLoS One, 2011), Bentink et al. (PLoS One, 2012), Verhaak et al. (J Clin Invest, 2013), and Konecny et al. (J Natl Cancer Inst, 2014). In addition, the package implements a consensus classifier, which consolidates and improves on the robustness of the proposed subtype classifiers, thereby providing reliable stratification of patients with HGS ovarian tumors of clearly defined subtype.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("consensusOV")Details
| Maintainer | Benjamin Haibe-Kains <benjamin.haibe.kains@utoronto.ca> |
| Author | Gregory M Chen [aut], Lavanya Kannan [aut], Ludwig Geistlinger [aut], Victor Kofia [aut], Levi Waldron [aut], Christopher Eeles [ctb], Benjamin Haibe-Kains [aut, cre] |
| License | Artistic-2.0 |
| URL | http://www.pmgenomics.ca/bhklab/software/consensusOV |
| Bug Reports | https://github.com/bhklab/consensusOV/issues |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | Classification, Clustering, DifferentialExpression, GeneExpression, Microarray, Software, Transcriptomics |
| Package Short Url | https://bioconductor.org/packages/consensusOV/ |
Citation
From within R, enter citation("consensusOV"):
Gregory M Chen, Lavanya Kannan, Ludwig Geistlinger, Victor Kofia, Levi Waldron, Benjamin Haibe-Kains. consensusOV: Gene expression-based subtype classification for high-grade serous ovarian cancer. doi:10.18129/B9.bioc.consensusOV, R package version 1.34.0, https://bioconductor.org/packages/consensusOV.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | consensusOV_1.34.0.tar.gz |
| Windows binary (x86_64) | consensusOV_1.34.0.zip |
| macOS binary (arm64) | consensusOV_1.34.0.tgz |
| macOS binary (x86_64) | consensusOV_1.34.0.tgz |
Dependencies
Depends: R (>= 3.6)
Imports: Biobase, GSVA (>= 1.50.0), gdata, genefu, limma, matrixStats, randomForest, stats, utils, methods, BiocParallel
Reverse dependencies
Imports Me (1): signifinder