multiWGCNA

DOI: 10.18129/B9.bioc.multiWGCNA  

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

multiWGCNA

Bioconductor version: Development (3.19)

An R package for deeping mining gene co-expression networks in multi-trait expression data. Provides functions for analyzing, comparing, and visualizing WGCNA networks across conditions. multiWGCNA was designed to handle the common case where there are multiple biologically meaningful sample traits, such as disease vs wildtype across development or anatomical region.

Author: Dario Tommasini [aut, cre] , Brent Fogel [aut, ctb]

Maintainer: Dario Tommasini <dtommasini0 at gmail.com>

Installation

To install this package, start R (version "4.4") and enter:

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

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

BiocManager::install("multiWGCNA")

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("multiWGCNA")

 

HTML	R Script	Astrocyte multiWGCNA network
HTML	R Script	General Workflow
PDF		Reference Manual
Text		NEWS

Details

biocViews	Clustering, DifferentialExpression, GeneExpression, RNASeq, Regression, Sequencing, Software
Version	1.1.0
In Bioconductor since	BioC 3.18 (R-4.3) (< 6 months)
License	GPL-3
Depends	R (>= 4.3.0), ggalluvial
Imports	stringr, readr, WGCNA, dplyr, reshape2, data.table, patchwork, scales, igraph, flashClust, ggplot2, dcanr, cowplot, ggrepel, methods, SummarizedExperiment
LinkingTo
Suggests	BiocStyle, doParallel, ExperimentHub, knitr, markdown, rmarkdown, testthat (>= 3.0.0), vegan
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me	multiWGCNAdata
Links To Me
Build Report

Package Archives

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

Source Package	multiWGCNA_1.1.0.tar.gz
Windows Binary	multiWGCNA_1.1.0.zip
macOS Binary (x86_64)	multiWGCNA_1.1.0.tgz
macOS Binary (arm64)	multiWGCNA_1.1.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/multiWGCNA
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/multiWGCNA
Bioc Package Browser	https://code.bioconductor.org/browse/multiWGCNA/
Package Short Url	https://bioconductor.org/packages/multiWGCNA/
Package Downloads Report	Download Stats