LICENSE
MANIFEST.in
README.md
pyproject.toml
requirements-dev.txt
requirements-llm.txt
requirements.txt
biocabinet.egg-info/PKG-INFO
biocabinet.egg-info/SOURCES.txt
biocabinet.egg-info/dependency_links.txt
biocabinet.egg-info/entry_points.txt
biocabinet.egg-info/requires.txt
biocabinet.egg-info/top_level.txt
scripts/__init__.py
scripts/orchestrator.py
scripts/render_graphs.py
scripts/bulk_rnaseq/__init__.py
scripts/bulk_rnaseq/config.py
scripts/bulk_rnaseq/graph.py
scripts/bulk_rnaseq/graph_nodes.py
scripts/bulk_rnaseq/graph_state.py
scripts/bulk_rnaseq/make_test_fastq.py
scripts/bulk_rnaseq/nodes.py
scripts/bulk_rnaseq/run_preprocessing.py
scripts/common/__init__.py
scripts/common/data_detect.py
scripts/common/node_result.py
scripts/enrichment/__init__.py
scripts/enrichment/config.py
scripts/enrichment/gnn_data.py
scripts/enrichment/gnn_model.py
scripts/enrichment/gnn_test.py
scripts/enrichment/gnn_train.py
scripts/enrichment/graph.py
scripts/enrichment/graph_nodes.py
scripts/enrichment/graph_state.py
scripts/enrichment/inference.py
scripts/enrichment/merge_pathway_embeddings.py
scripts/enrichment/nodes.py
scripts/enrichment/pathway_embed.py
scripts/enrichment/playfile.py
scripts/enrichment/precompute_esm.py
scripts/enrichment/reactome_embed.py
scripts/enrichment/test_chain_smoke.py
scripts/enrichment/utils.py
scripts/enrichment/wikipathways_embed.py
scripts/rag/__init__.py
scripts/rag/answerer.py
scripts/rag/artifact_reader.py
scripts/rag/augment.py
scripts/rag/build_index.py
scripts/rag/graph.py
scripts/rag/graph_nodes.py
scripts/rag/graph_state.py
scripts/rag/pipeline_context.py
scripts/rag/retriever.py
scripts/rag/tools.py
scripts/scrna/__init__.py
scripts/scrna/config.py
scripts/scrna/graph.py
scripts/scrna/graph_nodes.py
scripts/scrna/graph_state.py
scripts/scrna/nodes.py
scripts/spatial/__init__.py
scripts/spatial/config.py
scripts/spatial/graph.py
scripts/spatial/graph_nodes.py
scripts/spatial/nodes.py
tests/test_imports.py