gnomad_qc.v5.variant_qc.isolation_forest
========================================

Script to run the GATK isolation forest variant QC model on an AS-annotated sites VCF.

SNPs and INDELs are modeled separately (GATK ``--mode``): for each variant type the
workflow runs ExtractVariantAnnotations -> TrainVariantAnnotationsModel (PYTHON_IFOREST)
-> ScoreVariantAnnotations (scattered over intervals). The two per-mode scored VCFs are
merged into a single result HT in the ``--load-iforest`` step.





.. argparse::
   :ref: gnomad_qc.v5.variant_qc.isolation_forest.get_script_argument_parser
   :prog: gnomad_qc.v5.variant_qc.isolation_forest.py



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

.. gnomad_automodulesummary:: gnomad_qc.v5.variant_qc.isolation_forest

.. automodule:: gnomad_qc.v5.variant_qc.isolation_forest
    :exclude-members: get_script_argument_parser