modulediscoverer_db: Module Discoverer function wrapper

In ddeweerd/MODifieRDB: MODifieRDB

Description

Module Discoverer function wrapper

Usage

modulediscoverer_db(
  input_name,
  ppi_name,
  permutations = 10000,
  to_db = TRUE,
  folder = NULL,
  deg_cutoff = 0.05,
  repeats = 15,
  clique_cutoff = 0.01,
  n_cores,
  module_name,
  con
)

Arguments

input_name	Name of the input object in the database
ppi_name	Name of the PPI network in the database
permutations	Number of permutations to perform to identify the community structure
to_db	Save result in database, default is TRUE
folder	If not saved in database, folder where to save the module as .rds
deg_cutoff	p-value cutoff for differentialy expressed genes
repeats	Number of times the algorithm is repeated
clique_cutoff	cutoff pvalue for significant cliques
module_name	Unique name for the module object when stored in database
con	Database connection obtained with connect_to_db function

Details

Retrieves a MODifieR input object from database by input_name and runs modulediscoverer method.

ddeweerd/MODifieRDB documentation built on Feb. 5, 2021, 1:50 a.m.