Package: AMOUNTAIN 1.33.0

Dong Li

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

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.

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

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AMOUNTAIN.pdf |AMOUNTAIN.html✨
AMOUNTAIN/json (API)
NEWS

# Install 'AMOUNTAIN' in R:

install.packages('AMOUNTAIN', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Uses libs:

gsl– GNU Scientific Library (GSL)

On BioConductor:AMOUNTAIN-1.33.0(bioc 3.21)AMOUNTAIN-1.32.0(bioc 3.20)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

geneexpression microarray differentialexpression network gsl

3.78 score 1 packages 1 scripts 299 downloads 10 exports 0 dependencies

Last updated 2 months agofrom:03af05616e. Checks:OK: 9. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Nov 29 2024
R-4.5-win-x86_64	OK	Nov 29 2024
R-4.5-linux-x86_64	OK	Nov 29 2024
R-4.4-win-x86_64	OK	Nov 29 2024
R-4.4-mac-x86_64	OK	Nov 29 2024
R-4.4-mac-aarch64	OK	Nov 29 2024
R-4.3-win-x86_64	OK	Nov 29 2024
R-4.3-mac-x86_64	OK	Nov 29 2024
R-4.3-mac-aarch64	OK	Nov 29 2024

Exports:CGPFixSS CGPFixSSMultiLayer CGPFixSSTwolayer EuclideanProjectionENNORM moduleIdentificationGPFixSS moduleIdentificationGPFixSSMultilayer moduleIdentificationGPFixSSTwolayer multilayernetworkSimulation networkSimulation twolayernetworkSimulation

Dependencies:

Usage of AMOUNTAIN

Dong Li [email protected]

Rendered fromAMOUNTAIN.Rmdusingknitr::rmarkdownon Nov 29 2024.

Last update: 2016-11-16
Started: 2016-11-16

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Module Identification	CGPFixSS
Module Identification for multi-layer network	CGPFixSSMultiLayer
Module Identification for two-layer network	CGPFixSSTwolayer
Euclidean projection on elastic net	EuclideanProjectionENNORM
Module Identification	moduleIdentificationGPFixSS
Module Identification for multi-layer network	moduleIdentificationGPFixSSMultilayer
Module Identification for two-layer network	moduleIdentificationGPFixSSTwolayer
Illustration of multi-layer weighted network simulation	multilayernetworkSimulation
Illustration of weighted network simulation	networkSimulation
Illustration of two-layer weighted network simulation	twolayernetworkSimulation