mrnetWrapper: Implements mrnet

In Sage-Bionetworks/metanetwork: Network meta analysis

Implements mrnet

Description

This function infers the interaction network of 'data' using the MRNET algorithm.

Usage

mrnetWrapper(
  data,
  temp_path,
  path = NULL,
  pval = 1,
  outputpath,
  tool_storage_loc
)

Arguments

data	Required. A gene expression matrix with rows as sample IDs and columns as Gene or feature IDs.
temp_path	Required. The path location to install aracne to. eg. 'config$input_profile$temp_storage_loc'
path	Optional. String containing the path to the aracne compiled executable. (Default = NULL)
pval	Optional. Cutoff p-value to determine a coexpressed edge. If one is specified aracne will produce the file 'aracneNetwork.csv' if less than 1 it will produce the file 'aracneThresholdNetwork.csv'. (Default = 1)
outputpath	Required. The output path to save the resulting coexpression network
tool_storage_loc	Required. Provides the directory inside docker to temporarily store the ARACNE files and package. (Default = config$input_profile$temp_storage_loc)

Value

NULL. Saves a sparrow network object to paste0('outputpath', ‘regressionFunction',’mrnetNetwork.csv')

Sage-Bionetworks/metanetwork documentation built on April 27, 2022, 7:42 a.m.