README.md
pyproject.toml
praisonai_bio/__init__.py
praisonai_bio.egg-info/PKG-INFO
praisonai_bio.egg-info/SOURCES.txt
praisonai_bio.egg-info/dependency_links.txt
praisonai_bio.egg-info/entry_points.txt
praisonai_bio.egg-info/requires.txt
praisonai_bio.egg-info/top_level.txt
praisonai_bio/adapters/__init__.py
praisonai_bio/adapters/basico_adapter.py
praisonai_bio/adapters/biomodels_api.py
praisonai_bio/adapters/ols_adapter.py
praisonai_bio/adapters/sbml_adapter.py
praisonai_bio/adapters/sedml_adapter.py
praisonai_bio/cli/main.py
praisonai_bio/config/__init__.py
praisonai_bio/config/presets.py
praisonai_bio/eval/simulation_accuracy.py
praisonai_bio/eval/t2b_scorer.py
praisonai_bio/guardrails/simulation_output.py
praisonai_bio/hooks/biomodels_hooks.py
praisonai_bio/hooks/policy_gate.py
praisonai_bio/hooks/register.py
praisonai_bio/hooks/simulation_hooks.py
praisonai_bio/knowledge/article_index.py
praisonai_bio/mcp/server.py
praisonai_bio/orchestrator/chain_planner.py
praisonai_bio/orchestrator/comparison.py
praisonai_bio/orchestrator/discovery.py
praisonai_bio/orchestrator/file_detection.py
praisonai_bio/orchestrator/routing_table.py
praisonai_bio/policy/export_policy.py
praisonai_bio/policy/loader.py
praisonai_bio/policy/sbml_policy.py
praisonai_bio/protocols/biomodels.py
praisonai_bio/protocols/repro_bundle.py
praisonai_bio/protocols/sbml.py
praisonai_bio/protocols/simulation.py
praisonai_bio/skills/__init__.py
praisonai_bio/skills/bridge.py
praisonai_bio/state/model_state.py
praisonai_bio/state/session.py
praisonai_bio/tools/__init__.py
praisonai_bio/tools/_helpers.py
praisonai_bio/tools/advanced_search.py
praisonai_bio/tools/ask_question.py
praisonai_bio/tools/compare_models.py
praisonai_bio/tools/compare_simulations.py
praisonai_bio/tools/custom_plotter.py
praisonai_bio/tools/download_model_file.py
praisonai_bio/tools/get_annotation.py
praisonai_bio/tools/get_modelinfo.py
praisonai_bio/tools/get_reaction_graph.py
praisonai_bio/tools/list_model_files.py
praisonai_bio/tools/load_biomodel.py
praisonai_bio/tools/parameter_scan.py
praisonai_bio/tools/preview_outcomes.py
praisonai_bio/tools/query_article.py
praisonai_bio/tools/rank_models.py
praisonai_bio/tools/repro_export.py
praisonai_bio/tools/save_model.py
praisonai_bio/tools/sbml_summarise.py
praisonai_bio/tools/sbml_to_graph.py
praisonai_bio/tools/sbml_validate.py
praisonai_bio/tools/search_models.py
praisonai_bio/tools/search_parameters.py
praisonai_bio/tools/sedml_parse.py
praisonai_bio/tools/sedml_simulate.py
praisonai_bio/tools/simulate_model.py
praisonai_bio/tools/simulate_perturbation.py
praisonai_bio/tools/steady_state.py
praisonai_bio/tools/trust_scorecard.py
praisonai_bio/toolsets/__init__.py
praisonai_bio/toolsets/prebuilt.py
praisonai_bio/trace/bio_spans.py
praisonai_bio/trace/jsonl_sink.py