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.

Author
Dong Li, Shan He, Zhisong Pan and Guyu Hu
Date of publication
None
Maintainer
Dong Li <dxl466@cs.bham.ac.uk>
License
GPL (>= 2)
Version
1.0.0

View on Bioconductor

Man pages

EuclideanProjectionENNORM
Euclidean projection on elastic net
moduleIdentificationGPFixSS
Module Identification
moduleIdentificationGPFixSSMultilayer
Module Identification for multi-layer network
moduleIdentificationGPFixSSTwolayer
Module Identification for two-layer network
networkSimulation
Illustration of weighted network simulation
twolayernetworkSimulation
Illustration of two-layer weighted network simulation
vecconsensus
Vector consensus

Files in this package

AMOUNTAIN/DESCRIPTION
AMOUNTAIN/NAMESPACE
AMOUNTAIN/R
AMOUNTAIN/R/AMOUNTAIN.R
AMOUNTAIN/README.md
AMOUNTAIN/build
AMOUNTAIN/build/vignette.rds
AMOUNTAIN/inst
AMOUNTAIN/inst/NEWS
AMOUNTAIN/inst/doc
AMOUNTAIN/inst/doc/AMOUNTAIN.R
AMOUNTAIN/inst/doc/AMOUNTAIN.Rnw
AMOUNTAIN/inst/doc/AMOUNTAIN.pdf
AMOUNTAIN/man
AMOUNTAIN/man/EuclideanProjectionENNORM.Rd
AMOUNTAIN/man/moduleIdentificationGPFixSS.Rd
AMOUNTAIN/man/moduleIdentificationGPFixSSMultilayer.Rd
AMOUNTAIN/man/moduleIdentificationGPFixSSTwolayer.Rd
AMOUNTAIN/man/networkSimulation.Rd
AMOUNTAIN/man/twolayernetworkSimulation.Rd
AMOUNTAIN/man/vecconsensus.Rd
AMOUNTAIN/vignettes
AMOUNTAIN/vignettes/AMOUNTAIN.Rnw