run_bgzip_conda: Run bgzip: conda

In RajLabMSSM/echotabix: echoverse module: automated creation and querying of tabix files

Run bgzip: conda

Description

Support function for run_bgzip.

Usage

run_bgzip_conda(
  target_path,
  bgz_file = construct_tabix_path(target_path = target_path),
  chrom_col,
  start_col,
  end_col,
  comment_char = NULL,
  conda_env = "echoR_mini",
  verbose = TRUE
)

Arguments

target_path	Path to full GWAS/QTL summary statistics file.
bgz_file	Path to resulting bgz-compressed file after target_path has been converted to tabix format.
chrom_col	Name of the chromosome column in the target_path file.
start_col	Name of the genomic start position column in the target_path file.
end_col	Name of the genomic end position column in the target_path file.
comment_char	A single character which, when present as the first character in a line, indicates that the line is to be omitted from indexing.
conda_env	Conda environments to search in. If NULL (default), will search all conda environments.
verbose	Print messages.

RajLabMSSM/echotabix documentation built on Nov. 21, 2023, 8:02 a.m.