cnvkit-access1
List the locations of accessible sequence regions in a fasta file.
Overview
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
Releases
4 releases since Debian 10 (Buster); the text changed 3 times.