README.md
pyproject.toml
src/genomoncology/cli/__init__.py
src/genomoncology/cli/commands.py
src/genomoncology/cli/const.py
src/genomoncology/cli/options.py
src/genomoncology/cli/state.py
src/genomoncology/kms/__init__.py
src/genomoncology/kms/annotations.py
src/genomoncology/kms/contents.py
src/genomoncology/kms/factory.py
src/genomoncology/kms/genes.py
src/genomoncology/kms/match.py
src/genomoncology/kms/mega_match.py
src/genomoncology/kms/therapies.py
src/genomoncology/kms/transcripts.py
src/genomoncology/kms/trials.py
src/genomoncology/kms/variant_interpretations.py
src/genomoncology/parse/__init__.py
src/genomoncology/parse/doctypes.py
src/genomoncology/parse/ensures.py
src/genomoncology/parse/fieldtypes.py
src/genomoncology/parse/fusions.py
src/genomoncology/pipeline/__init__.py
src/genomoncology/pipeline/comparators.py
src/genomoncology/pipeline/converters.py
src/genomoncology/pipeline/filters.py
src/genomoncology/pipeline/runner.py
src/genomoncology/pipeline/sinks/__init__.py
src/genomoncology/pipeline/sinks/alterations.py
src/genomoncology/pipeline/sinks/annotations.py
src/genomoncology/pipeline/sinks/base.py
src/genomoncology/pipeline/sinks/excel.py
src/genomoncology/pipeline/sinks/tsv.py
src/genomoncology/pipeline/sinks/vcf.py
src/genomoncology/pipeline/sinks/warehouse.py
src/genomoncology/pipeline/sources/__init__.py
src/genomoncology/pipeline/sources/aggregated.py
src/genomoncology/pipeline/sources/annotations_filter.py
src/genomoncology/pipeline/sources/base.py
src/genomoncology/pipeline/sources/bed.py
src/genomoncology/pipeline/sources/const.py
src/genomoncology/pipeline/sources/delimited.py
src/genomoncology/pipeline/sources/excel.py
src/genomoncology/pipeline/sources/maf.py
src/genomoncology/pipeline/sources/paths.py
src/genomoncology/pipeline/sources/smart_lazy_file.py
src/genomoncology/pipeline/sources/xml.py
src/genomoncology/pipeline/sources/one_off_sources/__init__.py
src/genomoncology/pipeline/sources/one_off_sources/clinvar_xml.py
src/genomoncology/pipeline/sources/one_off_sources/mitomap.py
src/genomoncology/pipeline/sources/one_off_sources/mtdb.py
src/genomoncology/pipeline/sources/one_off_sources/uniprot.py
src/genomoncology/pipeline/transformers/__init__.py
src/genomoncology/pipeline/transformers/functions.py
src/genomoncology/pipeline/transformers/mapper_classes.py
src/genomoncology/pipeline/transformers/registry.py
src/genomoncology/pipeline/transformers/tx/__init__.py
src/genomoncology/pipeline/transformers/tx/baylor_decipher.py
src/genomoncology/pipeline/transformers/tx/baylor_wgl.py
src/genomoncology/pipeline/transformers/tx/clingen_dosage.py
src/genomoncology/pipeline/transformers/tx/clinvar.py
src/genomoncology/pipeline/transformers/tx/clinvar_xml.py
src/genomoncology/pipeline/transformers/tx/cosmic.py
src/genomoncology/pipeline/transformers/tx/cosmic_non_snv.py
src/genomoncology/pipeline/transformers/tx/dbnsfp.py
src/genomoncology/pipeline/transformers/tx/dbsnp.py
src/genomoncology/pipeline/transformers/tx/evs.py
src/genomoncology/pipeline/transformers/tx/exac.py
src/genomoncology/pipeline/transformers/tx/gene_type.py
src/genomoncology/pipeline/transformers/tx/genie_maf.py
src/genomoncology/pipeline/transformers/tx/gnomad.py
src/genomoncology/pipeline/transformers/tx/gnomad_gene.py
src/genomoncology/pipeline/transformers/tx/gnomad_mnv.py
src/genomoncology/pipeline/transformers/tx/gnomad_mnv_3bp.py
src/genomoncology/pipeline/transformers/tx/gnomad_sv.py
src/genomoncology/pipeline/transformers/tx/hgmd.py
src/genomoncology/pipeline/transformers/tx/hgmd_gene_list.py
src/genomoncology/pipeline/transformers/tx/hpo.py
src/genomoncology/pipeline/transformers/tx/markers.py
src/genomoncology/pipeline/transformers/tx/mito_trna.py
src/genomoncology/pipeline/transformers/tx/mitomap.py
src/genomoncology/pipeline/transformers/tx/mtdb.py
src/genomoncology/pipeline/transformers/tx/omim.py
src/genomoncology/pipeline/transformers/tx/secondary_findings_genes.py
src/genomoncology/pipeline/transformers/tx/splicing.py
src/genomoncology/pipeline/transformers/tx/sv_hash.py
src/genomoncology/pipeline/transformers/tx/thousandgenomes.py
src/genomoncology/pipeline/transformers/tx/uniprot.py
src/genomoncology/pipeline/transformers/tx/uniprot_domains.py
src/genomoncology/pipeline/transformers/tx/uniprot_protein_name.py
src/gocli.egg-info/PKG-INFO
src/gocli.egg-info/SOURCES.txt
src/gocli.egg-info/dependency_links.txt
src/gocli.egg-info/entry_points.txt
src/gocli.egg-info/requires.txt
src/gocli.egg-info/top_level.txt