Remove extreme multiallelic in exomes VDS

[KoalaQin]

This adds in an option to delete an excessively multi-allelic locus on chr19 as we did in

gnomad_qc/gnomad_qc/v4/annotations/generate_freq.py

Line 258 in cdc3dd5

logger.info("Dropping excessively multi-allelic site at chr19:5787204...")

.

[jkgoodrich]

Let's just remove it no matter what, even if split is not True. Maybe switch to use filter_intervals with keep = False

[KoalaQin]

Code to test if this was done:

"""Test script for gnomAD v4 data"""
import hail as hl
from gnomad_qc.v4.resources.basics import get_gnomad_v4_vds

vds = get_gnomad_v4_vds()
vds = hl.vds.filter_intervals(
    vds,
    [hl.parse_locus_interval("chr19:5787204-5787205", reference_genome="GRCh38")],
)
print(vds.variant_data.count())

ec223c63fde5413a93e1dfc7ca33e2c2 output:
(0, 940583)

[jkgoodrich]

LGTM!