TNBC.CMS

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see TNBC.CMS.

TNBC.CMS: Prediction of TNBC Consensus Molecular Subtypes


Bioconductor version: 3.11

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 "4.0") 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 1.4.0
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
System Requirements
URL
See More
Suggests knitr
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 TNBC.CMS_1.4.0.tar.gz
Windows Binary TNBC.CMS_1.4.0.zip
macOS 10.13 (High Sierra) TNBC.CMS_1.4.0.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
Old Source Packages for BioC 3.11 Source Archive