CancerSubtypes

This package is for version 3.10 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: 3.10

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 1.12.1
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
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 CancerSubtypes_1.12.1.tar.gz
Windows Binary CancerSubtypes_1.12.1.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) CancerSubtypes_1.12.1.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 3.10 Source Archive