DeconRNASeq

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

This package is for version 3.23 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see DeconRNASeq.

All versions

3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11

Deconvolution of Heterogeneous Tissue Samples for mRNA-Seq data

Bioconductor version: Release (3.23)

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")):

Ting Gong Joseph D. Szustakowski. DeconRNASeq: Deconvolution of Heterogeneous Tissue Samples for mRNA-Seq data. doi:10.18129/B9.bioc.DeconRNASeq, R package version 1.54.0, https://bioconductor.org/packages/DeconRNASeq.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

BiocManager::install("DeconRNASeq")

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

Documentation

No vignettes available
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, Software
Version	1.54.0
In Bioconductor since	BioC 2.11 (R-2.15) (14 years)
License	GPL-2
Depends	R (>= 2.14.0), limSolve, pcaMethods, ggplot2, grid
Imports
System Requirements
URL

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Package Archives

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

Source Package
Windows Binary (x86_64)	DeconRNASeq_1.53.1.zip
macOS Binary (big-sur-x86_64)	DeconRNASeq_1.53.0.tgz
macOS Binary (sonoma-arm64)	DeconRNASeq_1.53.1.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	https://bioconductor.org/packages/DeconRNASeq/
Package Downloads Report	Download Stats