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DeconRNASeq

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

Deconvolution of Heterogeneous Tissue Samples for mRNA-Seq data

Bioconductor version: Development (3.18)

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>

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

Installation

To install this package, start R (version "4.3") and enter: 

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

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

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")
DeconRNASeq Demo PDF R Script
Reference Manual PDF

Details

biocViews DifferentialExpression, Software
Version 1.43.0
In Bioconductor since BioC 2.11 (R-2.15) (11 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_1.43.0.tar.gz
Windows Binary DeconRNASeq_1.43.0.zip (64-bit only)
macOS Binary (x86_64) DeconRNASeq_1.43.0.tgz
macOS Binary (arm64) DeconRNASeq_1.43.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/DeconRNASeq
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DeconRNASeq
Bioc Package Browser https://code.bioconductor.org/browse/DeconRNASeq/
Package Short Url https://bioconductor.org/packages/DeconRNASeq/
Package Downloads Report Download Stats