aa-table-with-af

Produce an 'amino acid table' file from a vcf, including depth and alt frequency info.

Dependencies

This script uses pysam to parse .vcf files. pysam is available on both pypi and bioconda.

Usage

usage: aa_table_with_af.py [-h] [-s SAMPLE_ID] vcf

positional arguments:
  vcf

optional arguments:
  -h, --help            show this help message and exit
  -s SAMPLE_ID, --sample_id SAMPLE_ID