moda_db: moda function wrapper

In ddeweerd/MODifieRDB: MODifieRDB

Description

moda function wrapper

Usage

moda_db(
  input_name,
  cutmethod = "Density",
  to_db = TRUE,
  folder = NULL,
  group_of_interest,
  specificTheta = 0.1,
  conservedTheta = 0.1,
  module_name,
  con
)

Arguments

input_name	Name of the input object in the database
cutmethod	cutting the dendrogram based on maximal average Density or Modularity
to_db	Save result in database, default is TRUE
folder	If not saved in database, folder where to save the module as .rds
group_of_interest	Numerical value denoting which group contains the condition of interest (1 or 2)
specificTheta	the threshold to define min(s)+specificTheta, less than which is considered as condition specific module. s is the sums of rows in Jaccard index matrix. See supplementary file.
conservedTheta	The threshold to define max(s)-conservedTheta, greater than which is considered as condition conserved module. s is the sums of rows in Jaccard index matrix. See supplementary file.
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 moda method.

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