DeconRNASeq

DOI: 10.18129/B9.bioc.DeconRNASeq    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see DeconRNASeq.

Deconvolution of Heterogeneous Tissue Samples for mRNA-Seq data

Bioconductor version: 3.8

DeconSeq is an R package for deconvolution of heterogeneous tissues based on mRNA-Seq data. It modeled expression levels from heterogeneous cell populations in mRNA-Seq as the weighted average of expression from different constituting cell types and predicted cell type proportions of single expression profiles.

Author: Ting Gong <tinggong at gmail.com> Joseph D. Szustakowski <joseph.szustakowski at novartis.com>

Maintainer: Ting Gong <tinggong at gmail.com>

Installation

To install this package, start R (version "3.5") and enter:

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

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("DeconRNASeq")

 

PDF	R Script	DeconRNASeq Demo
PDF		Reference Manual

Details

biocViews	DifferentialExpression, Software
Version	1.24.0
In Bioconductor since	BioC 2.11 (R-2.15) (6.5 years)
License	GPL-2
Depends	R (>= 2.14.0), limSolve, pcaMethods, ggplot2, grid
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Package Archives

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

Source Package	DeconRNASeq_1.24.0.tar.gz
Windows Binary	DeconRNASeq_1.24.0.zip
Mac OS X 10.11 (El Capitan)	DeconRNASeq_1.24.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/DeconRNASeq
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/DeconRNASeq
Package Short Url	http://bioconductor.org/packages/DeconRNASeq/
Package Downloads Report	Download Stats