gnomad_qc.v4.annotations.generate_freq
======================================


Script to generate the frequency data annotations across v4 exomes.

This script first splits the v4 VDS into multiples VDSs based which are then densified
and annotated with frequency data and histograms. The VDSs are then merged back together
in a hail Table. Next the script corrects for the high AB heterozygous GATK artifact in
existing annotations when given the AF threshold using a high AB het array. The script
then computes the inbreeding coefficient using the raw call stats. Finally, it computes
the filtering allele frequency and grpmax with the AB-adjusted frequencies.





.. argparse::
   :ref: gnomad_qc.v4.annotations.generate_freq.get_script_argument_parser
   :prog: gnomad_qc.v4.annotations.generate_freq.py



Module Functions
****************

.. gnomad_automodulesummary:: gnomad_qc.v4.annotations.generate_freq

.. automodule:: gnomad_qc.v4.annotations.generate_freq
    :exclude-members: get_script_argument_parser