granges_to_bed: Convert from GRanges to BED format

In RajLabMSSM/echodata: echoverse module: Fine-mapping data access and formatting

Convert from GRanges to BED format

Description

Convert GRanges object to BED format and save as a text file.

Usage

granges_to_bed(
  grlist,
  save_dir = tempdir(),
  sep = "\t",
  nThread = 1,
  gzip = FALSE,
  verbose = TRUE
)

Arguments

grlist	A list of GRanges objects. Can also be a single non-list GRanges object.
save_dir	Where to save the BED file.
sep	The separator between columns. Default is ",".
nThread	The number of threads to use. Experiment to see what works best for your data on your hardware.
gzip	Whether the BED file should be gzip compressed.
verbose	Print messages.

Examples

gr <- echodata::dt_to_granges(dat = echodata::BST1)
bed_path <- echodata::granges_to_bed(grlist = gr)

RajLabMSSM/echodata documentation built on Nov. 21, 2023, 8 a.m.