createChromosomalMatrixSet {CNVScope}

Create chromosomal interaction matrices for CNVScope shiny application.

Description

Takes a linear regression matrix and sets infinites to a finite value, and changes the sign to match the sign of the correlation for each value.

Usage

createChromosomalMatrixSet(
  whole_genome_mat,
  output_dir = NULL,
  prefix = "nbl_"
)

Arguments

whole_genome_mat

The matrix containing all of the data, from which the individual matrices will be split.

output_dir

the folder where the matrices in RData format, will be written.

prefix

filename prefix for individual matrices. Default: "nbl_"

Value

The list of files already written to disk, with full filenames and paths.

Examples

#examples for this function would be too large to 
#include and should be run on an HPC machine node.
#illustration of this process is shown clearly in 
#the vignette and can be done if a user properly
#follows the instructions.
# The function is intended to be run on a whole interactome matrix (chr1-X).