LICENSE
MANIFEST.in
README.md
pyproject.toml
biomni/__init__.py
biomni/env_desc.py
biomni/llm.py
biomni/utils.py
biomni/version.py
biomni/agent/__init__.py
biomni/agent/a1.py
biomni/agent/env_collection.py
biomni/agent/qa_llm.py
biomni/agent/react.py
biomni/biorxiv_scripts/extract_biorxiv_tasks.py
biomni/biorxiv_scripts/generate_function.py
biomni/biorxiv_scripts/generation_tools_all_subjects.py
biomni/biorxiv_scripts/process_all_subjects.py
biomni/model/__init__.py
biomni/model/retriever.py
biomni/task/__init__.py
biomni/task/base_task.py
biomni/task/hle.py
biomni/task/lab_bench.py
biomni/tool/__init__.py
biomni/tool/biochemistry.py
biomni/tool/bioengineering.py
biomni/tool/biophysics.py
biomni/tool/cancer_biology.py
biomni/tool/cell_biology.py
biomni/tool/database.py
biomni/tool/genetics.py
biomni/tool/genomics.py
biomni/tool/immunology.py
biomni/tool/literature.py
biomni/tool/microbiology.py
biomni/tool/molecular_biology.py
biomni/tool/pathology.py
biomni/tool/pharmacology.py
biomni/tool/physiology.py
biomni/tool/support_tools.py
biomni/tool/synthetic_biology.py
biomni/tool/systems_biology.py
biomni/tool/tool_registry.py
biomni/tool/example_mcp_tools/pubmed_mcp.py
biomni/tool/schema_db/cbioportal.pkl
biomni/tool/schema_db/clinvar.pkl
biomni/tool/schema_db/dbsnp.pkl
biomni/tool/schema_db/emdb.pkl
biomni/tool/schema_db/ensembl.pkl
biomni/tool/schema_db/geo.pkl
biomni/tool/schema_db/gnomad.pkl
biomni/tool/schema_db/gtopdb.pkl
biomni/tool/schema_db/gwas_catalog.pkl
biomni/tool/schema_db/interpro.pkl
biomni/tool/schema_db/iucn.pkl
biomni/tool/schema_db/jaspar.pkl
biomni/tool/schema_db/kegg.pkl
biomni/tool/schema_db/monarch.pkl
biomni/tool/schema_db/mpd.pkl
biomni/tool/schema_db/openfda.pkl
biomni/tool/schema_db/opentarget.pkl
biomni/tool/schema_db/opentarget_genetics.pkl
biomni/tool/schema_db/paleobiology.pkl
biomni/tool/schema_db/pdb.pkl
biomni/tool/schema_db/pride.pkl
biomni/tool/schema_db/reactome.pkl
biomni/tool/schema_db/remap.pkl
biomni/tool/schema_db/stringdb.pkl
biomni/tool/schema_db/ucsc.pkl
biomni/tool/schema_db/uniprot.pkl
biomni/tool/schema_db/worms.pkl
biomni/tool/tool_description/biochemistry.py
biomni/tool/tool_description/bioengineering.py
biomni/tool/tool_description/biophysics.py
biomni/tool/tool_description/cancer_biology.py
biomni/tool/tool_description/cell_biology.py
biomni/tool/tool_description/database.py
biomni/tool/tool_description/genetics.py
biomni/tool/tool_description/genomics.py
biomni/tool/tool_description/immunology.py
biomni/tool/tool_description/literature.py
biomni/tool/tool_description/microbiology.py
biomni/tool/tool_description/molecular_biology.py
biomni/tool/tool_description/pathology.py
biomni/tool/tool_description/pharmacology.py
biomni/tool/tool_description/physiology.py
biomni/tool/tool_description/support_tools.py
biomni/tool/tool_description/synthetic_biology.py
biomni/tool/tool_description/systems_biology.py
biomni_env/README.md
biomni_env/bio_env.yml
biomni_env/cli_tools_config.json
biomni_env/environment.yml
biomni_env/install_cli_tools.sh
biomni_env/install_r_packages.R
biomni_env/new_software_v005.sh
biomni_env/r_packages.yml
biomni_env/setup.sh