DeMixT

DOI: 10.18129/B9.bioc.DeMixT    

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

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

Bioconductor version: 3.9

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>, Fan Gao <fgao3 at mdanderson.org>

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	1.0.4
In Bioconductor since	BioC 3.9 (R-3.6) (< 6 months)
License	GPL-3
Depends	R (>= 3.6), parallel, SummarizedExperiment, knitr, KernSmooth
Imports	matrixStats, stats
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Build Report

Package Archives

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

Source Package	DeMixT_1.0.4.tar.gz
Windows Binary	DeMixT_1.0.4.zip
Mac OS X 10.11 (El Capitan)	DeMixT_1.0.4.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