dcanr

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

All versions

3.24 (devel), 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

Differential co-expression/association network analysis

Bioconductor version: Development (3.24)

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] ORCID: 0000-0002-6398-9157

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

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

Dharmesh D. Bhuva. dcanr: Differential co-expression/association network analysis. doi:10.18129/B9.bioc.dcanr, R package version 1.29.0, https://bioconductor.org/packages/dcanr.

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")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, GraphAndNetwork, Network, NetworkInference, Software
Version	1.29.0
In Bioconductor since	BioC 3.9 (R-3.6) (7.5 years)
License	GPL-3
Depends	R (>= 3.6.0)
Imports	igraph, foreach, plyr, stringr, reshape2, methods, Matrix, graphics, stats, RColorBrewer, circlize, doRNG
System Requirements
URL	https://davislaboratory.github.io/dcanr/ https://github.com/DavisLaboratory/dcanr
Bug Reports	https://github.com/DavisLaboratory/dcanr/issues

Suggests	EBcoexpress, testthat, EBarrays, GeneNet, mclust, minqa, SummarizedExperiment, Biobase, knitr, rmarkdown, BiocStyle, edgeR
Linking To
Enhances	parallel, doSNOW, doParallel
Depends On Me
Imports Me	ClassifyR, multiWGCNA
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	dcanr_1.29.0.tar.gz
Windows Binary (x86_64)	dcanr_1.29.0.zip
macOS Binary (big-sur-x86_64)	dcanr_1.29.0.tgz
macOS Binary (sonoma-arm64)	dcanr_1.29.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/dcanr
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/dcanr
Package Short Url	https://bioconductor.org/packages/dcanr/
Package Downloads Report	Download Stats