LICENSE
MANIFEST.in
README.md
develop.sh
pyproject.toml
setup.py
docs/vaccine-design.md
docs/vaccine-validation.md
docs/vaccine-example/source-snapshots.json
docs/vaccine-example/loose/cancer-priorities.svg
docs/vaccine-example/loose/cancer_cohorts.csv
docs/vaccine-example/loose/cancer_summary.csv
docs/vaccine-example/loose/cds.fasta
docs/vaccine-example/loose/cleavage.csv
docs/vaccine-example/loose/construct-map.svg
docs/vaccine-example/loose/excluded_segments.csv
docs/vaccine-example/loose/full.fasta
docs/vaccine-example/loose/funnel.csv
docs/vaccine-example/loose/hla_panel.csv
docs/vaccine-example/loose/hla_support_counts.csv
docs/vaccine-example/loose/junction-binders.csv
docs/vaccine-example/loose/junctions.csv.gz
docs/vaccine-example/loose/layers.csv
docs/vaccine-example/loose/ligands.csv
docs/vaccine-example/loose/ms_assignments.csv
docs/vaccine-example/loose/protein.fasta
docs/vaccine-example/loose/queried_ms_observations.csv.gz
docs/vaccine-example/loose/rejected_ms_observations.csv
docs/vaccine-example/loose/search_history.csv
docs/vaccine-example/loose/selection.csv
docs/vaccine-example/loose/selection_screen.csv
docs/vaccine-example/loose/sequence-funnel.svg
docs/vaccine-example/loose/specific_intervals.csv
docs/vaccine-example/loose/validation.json
docs/vaccine-example/strict/cancer-priorities.svg
docs/vaccine-example/strict/cancer_cohorts.csv
docs/vaccine-example/strict/cancer_summary.csv
docs/vaccine-example/strict/cds.fasta
docs/vaccine-example/strict/cleavage.csv
docs/vaccine-example/strict/construct-map.svg
docs/vaccine-example/strict/excluded_segments.csv
docs/vaccine-example/strict/full.fasta
docs/vaccine-example/strict/funnel.csv
docs/vaccine-example/strict/hla_panel.csv
docs/vaccine-example/strict/hla_support_counts.csv
docs/vaccine-example/strict/junction-binders.csv
docs/vaccine-example/strict/junctions.csv.gz
docs/vaccine-example/strict/layers.csv
docs/vaccine-example/strict/ligands.csv
docs/vaccine-example/strict/ms_assignments.csv
docs/vaccine-example/strict/protein.fasta
docs/vaccine-example/strict/queried_ms_observations.csv.gz
docs/vaccine-example/strict/rejected_ms_observations.csv
docs/vaccine-example/strict/search_history.csv
docs/vaccine-example/strict/selection.csv
docs/vaccine-example/strict/selection_screen.csv
docs/vaccine-example/strict/sequence-funnel.svg
docs/vaccine-example/strict/specific_intervals.csv
docs/vaccine-example/strict/validation.json
examples/cta_vaccine_demo.py
scripts/develop.py
scripts/regenerate_hpa_cancer_prevalence.py
tests/test_alleles.py
tests/test_cancer_expression.py
tests/test_cli_common.py
tests/test_cli_data_friendliness.py
tests/test_cli_help_color.py
tests/test_cli_hits.py
tests/test_cli_hits_filters.py
tests/test_cli_hits_refs.py
tests/test_cli_no_leading_parens.py
tests/test_cli_personalize.py
tests/test_cli_spanning.py
tests/test_datasources.py
tests/test_develop.py
tests/test_downloads.py
tests/test_evidence.py
tests/test_export.py
tests/test_gene_sets.py
tests/test_hitlist_integration.py
tests/test_hitlist_vocabularies.py
tests/test_iedb.py
tests/test_indexing.py
tests/test_kmer_caching.py
tests/test_mhc.py
tests/test_mhcflurry_integration.py
tests/test_ms_evidence.py
tests/test_ms_evidence_plots.py
tests/test_mutations.py
tests/test_negatives.py
tests/test_neoantigen_evidence_plots.py
tests/test_oncoref_authority.py
tests/test_panels.py
tests/test_personalize.py
tests/test_personalize_filters.py
tests/test_public_api.py
tests/test_qc.py
tests/test_regions.py
tests/test_scoring.py
tests/test_spanning.py
tests/test_targets.py
tests/test_tiers.py
tests/test_tissues.py
tests/test_vaccine.py
tests/test_vaccine_atlas.py
tests/test_vaccine_models.py
tests/test_viral.py
tsarina/__init__.py
tsarina/alleles.py
tsarina/cancer_expression.py
tsarina/cli.py
tsarina/cli_common.py
tsarina/cli_hits.py
tsarina/cli_personalize.py
tsarina/cli_spanning.py
tsarina/cli_vaccine.py
tsarina/datasources.py
tsarina/downloads.py
tsarina/evidence.py
tsarina/export.py
tsarina/gene_sets.py
tsarina/hpa.py
tsarina/iedb.py
tsarina/indexing.py
tsarina/loader.py
tsarina/mhc.py
tsarina/ms_evidence.py
tsarina/ms_evidence_plots.py
tsarina/mscuration.py
tsarina/mtec.py
tsarina/mutations.py
tsarina/negatives.py
tsarina/neoantigen_evidence_plots.py
tsarina/panels.py
tsarina/partition.py
tsarina/peptides.py
tsarina/personalize.py
tsarina/qc.py
tsarina/regions.py
tsarina/scoring.py
tsarina/selection.py
tsarina/spanning.py
tsarina/targets.py
tsarina/tiers.py
tsarina/tissues.py
tsarina/vaccine.py
tsarina/vaccine_budget.py
tsarina/vaccine_construct.py
tsarina/vaccine_coverage.py
tsarina/vaccine_elements.py
tsarina/vaccine_inputs.py
tsarina/vaccine_report.py
tsarina/vaccine_sequences.py
tsarina/vaccine_tissues.py
tsarina/vaccine_website.py
tsarina/vaccine_website_figures.py
tsarina/version.py
tsarina/viral.py
tsarina.egg-info/PKG-INFO
tsarina.egg-info/SOURCES.txt
tsarina.egg-info/dependency_links.txt
tsarina.egg-info/entry_points.txt
tsarina.egg-info/requires.txt
tsarina.egg-info/top_level.txt
tsarina/data/__init__.py
tsarina/data/gene-ms-safety-evidence.csv
tsarina/data/hpa-cancer-ihc-prevalence.csv
tsarina/data/hpa-cancer-rna-prevalence.csv
tsarina/data/vaccine-website/app.js
tsarina/data/vaccine-website/index.html
tsarina/data/vaccine-website/style.css
tsarina/data/vaccine-website/fonts/atkinson-bold.woff2
tsarina/data/vaccine-website/fonts/atkinson-regular.woff2
tsarina/data/vaccine-website/fonts/atkinsonhyperlegible-license.txt
tsarina/data/vaccine-website/fonts/fraunces-license.txt
tsarina/data/vaccine-website/fonts/fraunces.woff2