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AMOUNTAIN

Active modules for multilayer weighted gene co-expression networks: a continuous optimization approach


Bioconductor version: Release (3.18)

A pure data-driven gene network, weighted gene co-expression network (WGCN) could be constructed only from expression profile. Different layers in such networks may represent different time points, multiple conditions or various species. AMOUNTAIN aims to search active modules in multi-layer WGCN using a continuous optimization approach.

Author: Dong Li, Shan He, Zhisong Pan and Guyu Hu

Maintainer: Dong Li <dxl466 at cs.bham.ac.uk>

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

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("AMOUNTAIN")

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("AMOUNTAIN")
Vignette Title HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DifferentialExpression, GeneExpression, Microarray, Network, Software
Version 1.28.0
In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)
License GPL (>= 2)
Depends R (>= 3.3.0)
Imports stats
System Requirements gsl
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Suggests BiocStyle, qgraph, knitr, rmarkdown
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Package Archives

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

Source Package AMOUNTAIN_1.28.0.tar.gz
Windows Binary AMOUNTAIN_1.28.0.zip (64-bit only)
macOS Binary (x86_64) AMOUNTAIN_1.28.0.tgz
macOS Binary (arm64) AMOUNTAIN_1.28.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/AMOUNTAIN
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/AMOUNTAIN
Bioc Package Browser https://code.bioconductor.org/browse/AMOUNTAIN/
Package Short Url https://bioconductor.org/packages/AMOUNTAIN/
Package Downloads Report Download Stats