preservationOneWay: Title Check whether one network module is preseved in a...

In juanbot/CoExpNets: Co-expression network management based on WGCNA + k-means

Description

Title Check whether one network module is preseved in a tissue gene expression profile

Usage

preservationOneWay(
  network,
  expr.data.files = NULL,
  tissues = c("snig", "putm"),
  permutations = 200,
  maxModuleSize = 5000,
  maxGoldModuleSize = 400,
  randomSeed = 1
)

Arguments

network	The network you want to assess about preservation (can be a full path and file name. Can be a network object as well.
expr.data.files	A list with the expression data used to create the network (1st element) and the expression data onto which we want the network assessed of preservation (2nd element)
tissues	A vector of strings, to name the tissues
permutations	The number of random permutations used to construct the null hypothesis. 200 may be a reasonable number
maxModuleSize	All modules over this size in genes will be considered as having as much size as this limit
maxGoldModuleSize	The size of the random module to be used as a reference of a totally random module values
randomSeed	Seed for the random number generator

Value

A data frame with modules in the rows and statistics at the columns.

juanbot/CoExpNets documentation built on May 15, 2021, 12:20 p.m.