output_out_list: Plotting and Output from 'out_list' object

In brucemoran/somenone: R functions required by the somenone NextFlow nf-core pipeline

Plotting and Output from 'out_list' object

Description

Plotting and Output from 'out_list' object

Usage

output_out_list(
  out_list,
  in_list,
  dict_file,
  which_genome,
  tag,
  cgc_gr = NULL,
  work_dir
)

Arguments

out_list	resulting from process_in_list
in_list	input to process_in_list
dict_file	dictionary file of fasta used to align BAMs
which_genome	the genome assembly used, "hg19" or "hg38"
tag	runID and annotation strategy, "ENS" or "CGC"
cgc_gr	GRanges of cancer gene census
work_dir	character path of where files should be found, written

Value

none writes output files

brucemoran/somenone documentation built on Nov. 1, 2022, 3:56 p.m.