LICENSE
MANIFEST.in
README.md
master-test.sh
requirements.txt
setup.py
docs/EXAMPLES.rst
docs/Makefile
docs/TODO.rst
docs/build.sh
docs/conf.py
docs/gemini.ai
docs/gemini.png
docs/index.rst
docs/_static/labibi.css
docs/_static/labibi.js
docs/content/acknowledgements.rst
docs/content/api.rst
docs/content/browser.rst
docs/content/caveats.rst
docs/content/database_schema.rst
docs/content/faq.rst
docs/content/functional_annotation.rst
docs/content/history.rst
docs/content/installation.rst
docs/content/loading.rst
docs/content/other.rst
docs/content/querying.rst
docs/content/quick_start.rst
docs/content/tools.rst
docs/images/browser-query.png
docs/images/overview.png
docs/templates/layout.html
docs/templates/page.html
docs/templates/sidebar-intro.html
docs/themes/rtd/theme.conf
docs/themes/rtd/static/rtd.css_t
geminisqlite/GeminiQuery.py
geminisqlite/__init__.py
geminisqlite/anno_info.py
geminisqlite/annotations.py
geminisqlite/compression.py
geminisqlite/config.py
geminisqlite/database.py
geminisqlite/dgidb.py
geminisqlite/func_impact.py
geminisqlite/gemini_actionable_mutations.py
geminisqlite/gemini_amend.py
geminisqlite/gemini_annotate.py
geminisqlite/gemini_browser.py
geminisqlite/gemini_constants.py
geminisqlite/gemini_dbinfo.py
geminisqlite/gemini_dump.py
geminisqlite/gemini_inheritance_model_utils.py
geminisqlite/gemini_load.py
geminisqlite/gemini_load_chunk.py
geminisqlite/gemini_main.py
geminisqlite/gemini_merge_chunks.py
geminisqlite/gemini_plot.py
geminisqlite/gemini_query.py
geminisqlite/gemini_region.py
geminisqlite/gemini_set_somatic.py
geminisqlite/gemini_stats.py
geminisqlite/gemini_subjects.py
geminisqlite/gemini_update.py
geminisqlite/gemini_utils.py
geminisqlite/gemini_windower.py
geminisqlite/gene_table.py
geminisqlite/infotag.py
geminisqlite/install-data.py
geminisqlite/ped.py
geminisqlite/popgen.py
geminisqlite/severe_impact.py
geminisqlite/snpEff.py
geminisqlite/sql.py
geminisqlite/sql_extended.py
geminisqlite/sql_utils.py
geminisqlite/stats.py
geminisqlite/structural_variants.py
geminisqlite/tool_autosomal_dominant.py
geminisqlite/tool_autosomal_recessive.py
geminisqlite/tool_burden_tests.py
geminisqlite/tool_compound_hets.py
geminisqlite/tool_de_novo_mutations.py
geminisqlite/tool_fusions.py
geminisqlite/tool_homozygosity_runs.py
geminisqlite/tool_interactions.py
geminisqlite/tool_lof_sieve.py
geminisqlite/tool_pathways.py
geminisqlite/vep.py
geminisqlite/version.py
geminisqlite.egg-info/PKG-INFO
geminisqlite.egg-info/SOURCES.txt
geminisqlite.egg-info/dependency_links.txt
geminisqlite.egg-info/not-zip-safe
geminisqlite.egg-info/requires.txt
geminisqlite.egg-info/top_level.txt
geminisqlite/data/__init__.py
geminisqlite/scripts/__init__.py
geminisqlite/scripts/gemini_install.py
geminisqlite/scripts/geminisqlite
test/ALL.wgs.phase1_release_v3.20101123.snps_indels_sv.sites.snippet.snpEff.vcf
test/ALL.wgs.phase1_release_v3.20101123.snps_indels_sv.sites.snippet.vcf
test/data-setup.sh
test/test-amend.sh
test/test-annotate-tool.sh
test/test-auto-dom.sh
test/test-auto-rec.sh
test/test-burden.sh
test/test-cadd.sh
test/test-clinvar.sh
test/test-columns.sh
test/test-comphet.sh
test/test-cosmic.sh
test/test-de-novo.sh
test/test-dump.sh
test/test-effstring.sh
test/test-encode.sh
test/test-exac.sh
test/test-genome.sh
test/test-genotypes.sh
test/test-gerp.sh
test/test-interactions.sh
test/test-load.sh
test/test-lofsieve.sh
test/test-map.sh
test/test-pathtool.sh
test/test-pfam.sh
test/test-pop.sh
test/test-query.sh
test/test-region.sh
test/test-roh.sh
test/test-stats.sh
test/test-wildcards.sh
test/test-windower.sh
test/test.auto_dom.no_parents.2.ped
test/test.auto_dom.no_parents.2.vcf
test/test.auto_dom.no_parents.3.ped
test/test.auto_dom.no_parents.3.vcf
test/test.auto_dom.no_parents.4.ped
test/test.auto_dom.no_parents.4.vcf
test/test.auto_dom.no_parents.5.ped
test/test.auto_dom.no_parents.5.vcf
test/test.auto_dom.no_parents.ped
test/test.auto_dom.no_parents.vcf
test/test.auto_dom.ped
test/test.auto_dom.vcf
test/test.auto_rec.no_parents.2.ped
test/test.auto_rec.no_parents.2.vcf
test/test.auto_rec.no_parents.3.ped
test/test.auto_rec.no_parents.3.vcf
test/test.auto_rec.no_parents.4.ped
test/test.auto_rec.no_parents.4.vcf
test/test.auto_rec.no_parents.5.ped
test/test.auto_rec.no_parents.5.vcf
test/test.auto_rec.no_parents.ped
test/test.auto_rec.no_parents.vcf
test/test.auto_rec.ped
test/test.auto_rec.vcf
test/test.burden.ped
test/test.burden.vcf
test/test.cadd.vcf
test/test.clinvar.vcf
test/test.comp_het.2.vcf
test/test.comp_het.ped
test/test.comp_het.vcf
test/test.cosmic.vcf
test/test.de_novo.ped
test/test.de_novo.vcf
test/test.family.vcf
test/test.passonly.vcf
test/test.query.core.db
test/test.query.vcf
test/test.query.vcf.gz
test/test.query.vcf.gz.gbi
test/test.region.vep.vcf
test/test.roh.vcf
test/test.snpeff.vcf
test/test.vcf_id.snpeff.vcf
test/test1.snpeff.vcf
test/test2.snpeff.vcf
test/test3.snpeff.vcf
test/test4.snpeff.ped
test/test4.vep.snpeff.vcf
test/test5.vep.snpeff.vcf
test/test_amend_sample.ped
test/test_extended_ped.ped