cnvkit-access(1)
List the locations of accessible sequence regions in a FASTA file.
Description
CNVKIT_ACCESS
NAME
cnvkit_access - List the locations of accessible sequence regions in a FASTA file.
DESCRIPTION
usage: cnvkit access [-h] [-s MIN_GAP_SIZE] [-x EXCLUDE] [-o FILENAME]
fa_fname
positional arguments:
fa_fname
Genome FASTA file name
options:
-h, --help
show this help message and exit
-s MIN_GAP_SIZE, --min-gap-size MIN_GAP_SIZE
Minimum gap size between accessible sequence regions. Regions separated by less than this distance will be joined together. [Default: 5000]
-x EXCLUDE, --exclude EXCLUDE
Additional regions to exclude, in BED format. Can be used multiple times.
-o FILENAME, --output FILENAME
Output file name