CancerSubtypes

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see CancerSubtypes.

Cancer subtypes identification, validation and visualization based on multiple genomic data sets


Bioconductor version: 3.9

CancerSubtypes integrates the current common computational biology methods for cancer subtypes identification and provides a standardized framework for cancer subtype analysis based multi-omics data, such as gene expression, miRNA expression, DNA methylation and others.

Author: Taosheng Xu<taosheng.x at gmail.com>, Thuc Le<Thuc.Le at unisa.edu.au>

Maintainer: Taosheng Xu<taosheng.x at gmail.com>

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

Installation

To install this package, start R (version "3.6") and enter:


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

BiocManager::install("CancerSubtypes")

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("CancerSubtypes")
CancerSubtypes HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Clustering, GeneExpression, Software, Visualization
Version 1.10.0
In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)
License GPL (>= 2)
Depends R (>= 3.4), sigclust, NMF
Imports SNFtool, iCluster, cluster, impute, limma, ConsensusClusterPlus, grDevices, survival
System Requirements
URL https://github.com/taoshengxu/CancerSubtypes
Bug Reports https://github.com/taoshengxu/CancerSubtypes/issues
See More
Suggests BiocGenerics, RUnit, knitr, RTCGA.mRNA, RTCGA.clinical
Linking To
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Build Report Build Report

Package Archives

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

Source Package CancerSubtypes_1.10.0.tar.gz
Windows Binary CancerSubtypes_1.10.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) CancerSubtypes_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CancerSubtypes
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CancerSubtypes
Bioc Package Browser https://code.bioconductor.org/browse/CancerSubtypes/
Package Short Url https://bioconductor.org/packages/CancerSubtypes/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive