CHANGELOG.md
CITATION.cff
CONTRIBUTING.md
LICENSE
MANIFEST.in
Makefile
README.md
pyproject.toml
docs/api.md
docs/benchmark.md
docs/bottleneck.md
docs/calibration.md
docs/cli.md
docs/coefficients.md
docs/data_sources.md
docs/ethics_and_limitations.md
docs/index.md
docs/manuscript_differentiation_section.md
docs/manuscript_results_section.md
docs/simulation.md
docs/streamlit_app.md
docs/theory.md
docs/validation.md
examples/run_demo.sh
materials/chemical_archetypes.csv
materials/coefficient_review.csv
materials/data_dictionary.csv
materials/dataset_manifest.csv
materials/intervention_dictionary.csv
materials/kcc_to_aop_mapping.csv
materials/provenance_template.json
src/icg_cast/__init__.py
src/icg_cast/__main__.py
src/icg_cast/_branding.py
src/icg_cast/bottleneck.py
src/icg_cast/cli.py
src/icg_cast/cli_coeffs.py
src/icg_cast/cli_milestone10.py
src/icg_cast/config.py
src/icg_cast/constants.py
src/icg_cast/counterfactuals.py
src/icg_cast/graph.py
src/icg_cast/io.py
src/icg_cast/models.py
src/icg_cast/omics.py
src/icg_cast/plotting.py
src/icg_cast/signatures.py
src/icg_cast/simulator.py
src/icg_cast/simulator_milestone9.py
src/icg_cast/streamlit_app.py
src/icg_cast/survival.py
src/icg_cast.egg-info/PKG-INFO
src/icg_cast.egg-info/SOURCES.txt
src/icg_cast.egg-info/dependency_links.txt
src/icg_cast.egg-info/entry_points.txt
src/icg_cast.egg-info/requires.txt
src/icg_cast.egg-info/top_level.txt
src/icg_cast/audit/__init__.py
src/icg_cast/audit/coefficient_sensitivity.py
src/icg_cast/audit/prior_sensitivity.py
src/icg_cast/audit/validate_reviews.py
src/icg_cast/benchmark/__init__.py
src/icg_cast/benchmark/conformity_bootstrap.py
src/icg_cast/benchmark/dgp.py
src/icg_cast/benchmark/generators.py
src/icg_cast/benchmark/leaderboard.py
src/icg_cast/benchmark/oracle_audit.py
src/icg_cast/benchmark/scoring.py
src/icg_cast/benchmark/scoring_milestone11.py
src/icg_cast/benchmark/tasks.py
src/icg_cast/biology/__init__.py
src/icg_cast/biology/biological_risk_equation.py
src/icg_cast/calibration/__init__.py
src/icg_cast/calibration/bundle.py
src/icg_cast/calibration/coupling.py
src/icg_cast/calibration/graph_enrichment.py
src/icg_cast/calibration/kcc_priors.py
src/icg_cast/calibration/modules.py
src/icg_cast/calibration/pipeline.py
src/icg_cast/calibration/pipeline_milestone10.py
src/icg_cast/calibration/signatures.py
src/icg_cast/coefficients/__init__.py
src/icg_cast/coefficients/demo_milestone9.py
src/icg_cast/coefficients/priors.py
src/icg_cast/coefficients/priors9.py
src/icg_cast/coefficients/registry.py
src/icg_cast/data_sources/__init__.py
src/icg_cast/data_sources/aopdb.py
src/icg_cast/data_sources/aopwiki.py
src/icg_cast/data_sources/common.py
src/icg_cast/data_sources/cosmic.py
src/icg_cast/data_sources/ctd.py
src/icg_cast/data_sources/gdc.py
src/icg_cast/data_sources/lincs.py
src/icg_cast/data_sources/sigprofiler.py
src/icg_cast/data_sources/toxcast.py
src/icg_cast/oracle/__init__.py
src/icg_cast/oracle/reference_risk_oracle.py
src/icg_cast/validation/__init__.py
src/icg_cast/validation/biological_coherence.py
src/icg_cast/validation/calibration.py
src/icg_cast/validation/cross_species.py
tests/test_calibration.py
tests/test_cli_smoke.py
tests/test_coefficient_registry.py
tests/test_data_source_stubs.py
tests/test_graph.py
tests/test_imports.py
tests/test_milestones_11_13.py
tests/test_models.py
tests/test_signatures.py
tests/test_simulator.py
tests/test_survival.py
tests/test_validation.py