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CancerSubtypes

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This is the development version of CancerSubtypes; for the stable release version, see CancerSubtypes.

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


Bioconductor version: Development (3.19)

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 [aut, cre]

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

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("CancerSubtypes")

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

Documentation

Reference Manual PDF

Details

biocViews Clustering, GeneExpression, Software, Visualization
Version 1.29.1
In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)
License GPL (>= 2)
Depends R (>= 4.0), sigclust, NMF
Imports cluster, impute, limma, ConsensusClusterPlus, grDevices, survival
System Requirements
URL https://github.com/taoshengxu/CancerSubtypes
Bug Reports https://github.com/taoshengxu/CancerSubtypes/issues
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Suggests BiocGenerics, knitr, RTCGA.mRNA, rmarkdown
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Package Archives

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

Source Package
Windows Binary CancerSubtypes_1.29.1.zip
macOS Binary (x86_64) CancerSubtypes_1.29.1.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/CancerSubtypes
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CancerSubtypes
Package Short Url https://bioconductor.org/packages/CancerSubtypes/
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