createChromosomalMatrixSet: Create chromosomal interaction matrices for CNVScope shiny...

In jamesdalg/CNVScope: A Versatile Toolkit for Copy Number Variation Relationship Data Analysis and Visualization

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).

jamesdalg/CNVScope documentation built on Aug. 18, 2022, 4:43 p.m.