AMOUNTAIN

DOI: 10.18129/B9.bioc.AMOUNTAIN    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see AMOUNTAIN.

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

Bioconductor version: 3.9

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>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("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")

 

HTML	R Script	Vignette Title
PDF		Reference Manual
Text		NEWS

Details

biocViews	DifferentialExpression, GeneExpression, Microarray, Network, Software
Version	1.10.0
In Bioconductor since	BioC 3.4 (R-3.3) (3 years)
License	GPL (>= 2)
Depends	R (>= 3.3.0)
Imports	stats
LinkingTo
Suggests	BiocStyle, qgraph, knitr, rmarkdown
SystemRequirements	gsl
Enhances
URL
Depends On Me
Imports Me	MODA
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	AMOUNTAIN_1.10.0.tar.gz
Windows Binary	AMOUNTAIN_1.10.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	AMOUNTAIN_1.10.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/AMOUNTAIN
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/AMOUNTAIN
Package Short Url	https://bioconductor.org/packages/AMOUNTAIN/
Package Downloads Report	Download Stats