run_test: Runs the LOH, TAI, and LST Tests

In eyzhao/hrdtools: Homologous Recombination Deficiency Tests with Whole Genome Sequencing

Description

This function loads an LOH segments file and performs the three HRD tests on it.

Usage

run_test(loh_file, file.col = NULL, loh.col = "lohtype",
  cnv.col = "copy_number", genome = "hg19", silent = FALSE)

Arguments

loh_file	Path to an LOH file suitable for import_ranges()
genome	ID of the genome being used (default: 'hg19')
silent	If TRUE, does not print HRD scores, just returns them (default: 'FALSE')

eyzhao/hrdtools documentation built on May 21, 2019, 3:09 a.m.