DeMixT

DOI: 10.18129/B9.bioc.DeMixT    

Cell type-specific deconvolution of heterogeneous tumor samples with two or three components using expression data from RNAseq or microarray platforms

Bioconductor version: Release (3.10)

DeMixT is a software package that performs deconvolution on transcriptome data from a mixture of two or three components.

Author: Zeya Wang <zw17.rice at gmail.com>, Wenyi Wang <wwang7 at at mdanderson.org>

Maintainer: Zeya Wang <zw17.rice at gmail.com>, Peng Yang <py11 at rice.edu>, Fan Gao <fgao3 at mdanderson.org>

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

Installation

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

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

BiocManager::install("DeMixT")

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("DeMixT")

 

PDF R Script DeMixT.Rmd
HTML R Script DeMixT.Rmd
PDF   Reference Manual
Text   NEWS

Details

biocViews Classification, Coverage, GeneExpression, Microarray, Sequencing, Software, StatisticalMethod, TissueMicroarray
Version 1.2.1
In Bioconductor since BioC 3.9 (R-3.6) (0.5 years)
License GPL-3
Depends R (>= 3.6), parallel, SummarizedExperiment, knitr, KernSmooth
Imports matrixStats, stats
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package DeMixT_1.2.1.tar.gz
Windows Binary DeMixT_1.2.1.zip
Mac OS X 10.11 (El Capitan) DeMixT_1.2.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/DeMixT
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DeMixT
Package Short Url https://bioconductor.org/packages/DeMixT/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.10 Source Archive

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