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TNBC.CMS

TNBC.CMS: Prediction of TNBC Consensus Molecular Subtypes


Bioconductor version: Release (3.18)

This package implements a machine learning-based classifier for the assignment of consensus molecular subtypes to TNBC samples. It also provides functions to summarize genomic and clinical characteristics.

Author: Doyeong Yu, Jihyun Kim, In Hae Park, Charny Park

Maintainer: Doyeong Yu <parklab.bi at gmail.com>

Citation (from within R, enter citation("TNBC.CMS")):

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("TNBC.CMS")

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

Documentation

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

browseVignettes("TNBC.CMS")
TNBC.CMS.pdf PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Classification, Clustering, GeneExpression, GenePrediction, Software, SupportVectorMachine
Version 1.18.0
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License GPL-3
Depends R (>= 3.6.0), e1071, quadprog, SummarizedExperiment
Imports GSVA(>= 1.26.0), pheatmap, grDevices, RColorBrewer, pracma, GGally, R.utils, forestplot, ggplot2, ggpubr, survival, grid, stats, methods
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Package Archives

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

Source Package TNBC.CMS_1.18.0.tar.gz
Windows Binary TNBC.CMS_1.18.0.zip
macOS Binary (x86_64) TNBC.CMS_1.18.0.tgz
macOS Binary (arm64) TNBC.CMS_1.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/TNBC.CMS
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TNBC.CMS
Bioc Package Browser https://code.bioconductor.org/browse/TNBC.CMS/
Package Short Url https://bioconductor.org/packages/TNBC.CMS/
Package Downloads Report Download Stats