dcanr

DOI: 10.18129/B9.bioc.dcanr  

Differential co-expression/association network analysis

Bioconductor version: Release (3.16)

This package implements methods and an evaluation framework to infer differential co-expression/association networks. Various methods are implemented and can be evaluated using simulated datasets. Inference of differential co-expression networks can allow identification of networks that are altered between two conditions (e.g., health and disease).

Author: Dharmesh D. Bhuva [aut, cre]

Maintainer: Dharmesh D. Bhuva <bhuva.d at wehi.edu.au>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("dcanr")

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("dcanr")

 

HTML	R Script	1. Differential co-expression analysis
HTML	R Script	2. DC method evaluation
PDF		Reference Manual
Text		NEWS

Details

biocViews	DifferentialExpression, GraphAndNetwork, Network, NetworkInference, Software
Version	1.14.0
In Bioconductor since	BioC 3.9 (R-3.6) (4 years)
License	GPL-3
Depends	R (>= 3.6.0)
Imports	igraph, foreach, plyr, stringr, reshape2, methods, Matrix, graphics, stats, RColorBrewer, circlize, doRNG
LinkingTo
Suggests	EBcoexpress, testthat, EBarrays, GeneNet, mclust, minqa, SummarizedExperiment, Biobase, knitr, rmarkdown, BiocStyle, edgeR
SystemRequirements
Enhances	parallel, doSNOW, doParallel
URL	https://davislaboratory.github.io/dcanr/ https://github.com/DavisLaboratory/dcanr
BugReports	https://github.com/DavisLaboratory/dcanr/issues
Depends On Me
Imports Me	SingscoreAMLMutations
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	dcanr_1.14.0.tar.gz
Windows Binary	dcanr_1.14.0.zip
macOS Binary (x86_64)	dcanr_1.14.0.tgz
macOS Binary (arm64)	dcanr_1.14.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/dcanr
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/dcanr
Bioc Package Browser	https://code.bioconductor.org/browse/dcanr/
Package Short Url	https://bioconductor.org/packages/dcanr/
Package Downloads Report	Download Stats