DOI: 10.18129/B9.bioc.csdR  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see csdR.

Differential gene co-expression

Bioconductor version: 3.17

This package contains functionality to run differential gene co-expression across two different conditions. The algorithm is inspired by Voigt et al. 2017 and finds Conserved, Specific and Differentiated genes (hence the name CSD). This package include efficient and variance calculation by bootstrapping and Welford's algorithm.

Author: Jakob Peder Pettersen [aut, cre]

Maintainer: Jakob Peder Pettersen <jakobpeder.pettersen at gmail.com>

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


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if (!require("BiocManager", quietly = TRUE))


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biocViews DifferentialExpression, GeneExpression, GraphAndNetwork, Network, Software
Version 1.6.0
In Bioconductor since BioC 3.14 (R-4.1) (2 years)
License GPL-3
Depends R (>= 4.1.0)
Imports WGCNA, glue, RhpcBLASctl, matrixStats, Rcpp
LinkingTo Rcpp
Suggests rmarkdown, knitr, testthat (>= 3.0.0), BiocStyle, magrittr, igraph, dplyr
URL https://almaaslab.github.io/csdR https://github.com/AlmaasLab/csdR
BugReports https://github.com/AlmaasLab/csdR/issues
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Follow Installation instructions to use this package in your R session.

Source Package csdR_1.6.0.tar.gz
Windows Binary csdR_1.5.0.zip (64-bit only)
macOS Binary (x86_64) csdR_1.6.0.tgz
macOS Binary (arm64) csdR_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/csdR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/csdR
Bioc Package Browser https://code.bioconductor.org/browse/csdR/
Package Short Url https://bioconductor.org/packages/csdR/
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