NAME
cnvkit_access - List the locations of accessible sequence regions in a FASTA file.
DESCRIPTION
usage: cnvkit.py 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