heatModules: The automatic procedure to detect modules in the interaction...

In maplesword/TOMRwModule: TOMRwModule: Module identification in network by incorporating additional numeric attribute of vertices

Description

This function integrates all steps including missing value imputation, heat diffusion and module detection into an automatic pipeline.

Usage

heatModules(links = interactions_brain, heat = NULL, force_HD = FALSE,
  fill = "mean", directed = FALSE, beta = 0.55, minSize = 20, ...)

Arguments

links	A two-column matrix or data frame, with each row representing one interaction
heat	A numeric vector representing initial heat of each vectex in the network
force_HD	If there are no more than half of the vertices have known heat, whether the heat diffusion procedure should be applied
fill	A numeric value, character, or function to specialize the way to fill in missing values
directed	Whether the interactions are directed
beta	Insulating parameter between 0 and 1
minSize	The minimum requirement of identified modules
...	Other parameters for 'dynamicTreeCut' in TOM-based module detection

Value

A list with each element representing vertices of one module

maplesword/TOMRwModule documentation built on May 31, 2019, 1:16 p.m.