hybridCorMat: Create a hybrid correlation matrix for each subgroup

In ryananeff/superNOVA: Differential coexpression within multiple subgroups of data

Create a hybrid correlation matrix for each subgroup

Description

Create a hybrid correlation matrix from a superNOVA output, suitable for downstream MEGENA network creation. Differentially coexpressed edges use a subgroup-specific coexpression model, while others use a global model.

Usage

hybridCorMat(input_file, output_file_prefix, diffCor_cutoff = 0.05,
  corPval_cutoff = 0.05, bufflen = 10000)

Arguments

input_file	An input filename, pointing to a superNOVA output file.
output_file_prefix	The prefix to give to all of the subgroup-specific output files.
diffCor_cutoff	The p-value at which to consider a subgroup-specific model versus a global model. Default = 0.05.
corPval_cutoff	The p-value at which to consider an edge to have significant correlation between genes versus no correlation. Default = 0.05.
bufflen	The number of buffer rows for reading the input file, increasing this will speed up the computation at the expense of memory. Default = 10000.

Value

None (output to files)

ryananeff/superNOVA documentation built on March 29, 2024, 5:31 p.m.