cAMARETTO_IdentifyCom: cAMARETTO_IdentifyCom

Description Usage Arguments Value Examples

View source: R/cAMARETTO_identifycom.R

Description

cAMARETTO_IdentifyCom

Usage

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cAMARETTO_IdentifyCom(cAMARETTOnetworkM, color_list = NULL,
  filterComm = TRUE, ratioCommSize = 0.01, MinRuns = 2,
  ratioRunSize = 0.1, ratioEdgesInOut = 0.5, plot_network = TRUE)

Arguments

cAMARETTOnetworkM

The output of the Module Network function.

color_list

An optional list with colors.

filterComm

Boolean to indicate if the identified communities needs to be filtered or not.

ratioCommSize

Filter nodes in the community versus nodes out of the community.

MinRuns

Filter on minimum number of runs in the community.

ratioRunSize

Filter on percentage of runs in the community versus total number of runs.

ratioEdgesInOut

Filer on edges in the community versus edges going out.

plot_network

If TRUE, plots the Community Network at the end.

Value

a list with the module network, a community list, community edge information and color list.

Examples

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cAMARETTOnetworkC<-cAMARETTO_IdentifyCom(cAMARETTOnetworkM,filterComm = FALSE)

broadinstitute/ImagingAMARETTO documentation built on Dec. 3, 2019, 6:38 p.m.