LICENSE
MANIFEST.in
README.md
pyproject.toml
requirements.txt
setup.cfg
docs/source/cli.rst
docs/source/conf.py
docs/source/datasources.rst
docs/source/graph_plotters.rst
docs/source/index.rst
docs/source/installation.rst
src/pyBiodatafuse/__init__.py
src/pyBiodatafuse/__main__.py
src/pyBiodatafuse/cli.py
src/pyBiodatafuse/constants.py
src/pyBiodatafuse/data_loader.py
src/pyBiodatafuse/id_annotator.py
src/pyBiodatafuse/id_mapper.py
src/pyBiodatafuse/utils.py
src/pyBiodatafuse/version.py
src/pyBiodatafuse.egg-info/PKG-INFO
src/pyBiodatafuse.egg-info/SOURCES.txt
src/pyBiodatafuse.egg-info/dependency_links.txt
src/pyBiodatafuse.egg-info/entry_points.txt
src/pyBiodatafuse.egg-info/not-zip-safe
src/pyBiodatafuse.egg-info/requires.txt
src/pyBiodatafuse.egg-info/top_level.txt
src/pyBiodatafuse/algorithms/DREAMwalk/HeterogeneousSG.cpp
src/pyBiodatafuse/algorithms/DREAMwalk/HeterogeneousSG.py
src/pyBiodatafuse/algorithms/DREAMwalk/calculate_drug_scores.py
src/pyBiodatafuse/algorithms/DREAMwalk/constant.py
src/pyBiodatafuse/algorithms/DREAMwalk/generate_embeddings.py
src/pyBiodatafuse/algorithms/DREAMwalk/generate_files.py
src/pyBiodatafuse/algorithms/DREAMwalk/generate_similarity_net.py
src/pyBiodatafuse/algorithms/DREAMwalk/predict_associations.py
src/pyBiodatafuse/algorithms/DREAMwalk/utils.py
src/pyBiodatafuse/analyzer/README.md
src/pyBiodatafuse/analyzer/summarize.py
src/pyBiodatafuse/analyzer/utils.py
src/pyBiodatafuse/analyzer/explorer/literature.py
src/pyBiodatafuse/analyzer/explorer/patent.py
src/pyBiodatafuse/analyzer/explorer/queries/wikidata-genes-literature.rq
src/pyBiodatafuse/annotators/__init__.py
src/pyBiodatafuse/annotators/bgee.py
src/pyBiodatafuse/annotators/disgenet.py
src/pyBiodatafuse/annotators/minerva.py
src/pyBiodatafuse/annotators/molmedb.py
src/pyBiodatafuse/annotators/opentargets.py
src/pyBiodatafuse/annotators/pubchem.py
src/pyBiodatafuse/annotators/rdf_annotator_template.py
src/pyBiodatafuse/annotators/stringdb.py
src/pyBiodatafuse/annotators/wikidata.py
src/pyBiodatafuse/annotators/wikipathways.py
src/pyBiodatafuse/annotators/queries/bgee-genes-tissues-expression-level.rq
src/pyBiodatafuse/annotators/queries/bgee-get-last-modified.rq
src/pyBiodatafuse/annotators/queries/molmedb-transporters-inhibited-by-molecule.rq
src/pyBiodatafuse/annotators/queries/molmedb-transporters-inhibitors.rq
src/pyBiodatafuse/annotators/queries/pubchem-proteins-screend-molecule.rq
src/pyBiodatafuse/annotators/queries/wikidata-genes-cellularComponent.rq
src/pyBiodatafuse/annotators/queries/wikidata-genes-literature.rq
src/pyBiodatafuse/annotators/queries/wikidata-test.rq
src/pyBiodatafuse/annotators/queries/wikipathways-genes-pathways.rq
src/pyBiodatafuse/annotators/queries/wikipathways-metadata.rq
src/pyBiodatafuse/graph/__init__.py
src/pyBiodatafuse/graph/cytoscape.py
src/pyBiodatafuse/graph/generator.py
src/pyBiodatafuse/graph/neo4j.py
src/pyBiodatafuse/graph/rdf/__init__.py
src/pyBiodatafuse/graph/rdf/metadata.py
src/pyBiodatafuse/graph/rdf/rdf.py
src/pyBiodatafuse/graph/rdf/utils.py
src/pyBiodatafuse/graph/rdf/nodes/compound.py
src/pyBiodatafuse/graph/rdf/nodes/experimental_process.py
src/pyBiodatafuse/graph/rdf/nodes/gene.py
src/pyBiodatafuse/graph/rdf/nodes/gene_disease.py
src/pyBiodatafuse/graph/rdf/nodes/gene_expression.py
src/pyBiodatafuse/graph/rdf/nodes/go_terms.py
src/pyBiodatafuse/graph/rdf/nodes/literature.py
src/pyBiodatafuse/graph/rdf/nodes/pathway.py
src/pyBiodatafuse/graph/rdf/nodes/protein_protein.py
src/pyBiodatafuse/resources/__init__.py
src/pyBiodatafuse/resources/biodatafuse.owl
src/pyBiodatafuse/resources/datasources.csv
src/pyBiodatafuse/resources/prefixes.ttl
src/pyBiodatafuse/resources/styles.xml
tests/__init__.py
tests/analyzer/__init__.py
tests/annotators/__init__.py
tests/annotators/test_bgee.py
tests/annotators/test_disgenet.py
tests/annotators/test_minerva.py
tests/annotators/test_molmedb.py
tests/annotators/test_opentargets.py
tests/annotators/test_pubchem.py
tests/annotators/test_string.py
tests/annotators/test_wikidata.py
tests/annotators/test_wikipathways.py
tests/annotators/data/bgee_mock_data.json
tests/annotators/data/disgenet_gene_disease_mock.json
tests/annotators/data/minerva_components.json
tests/annotators/data/opentargets_disease_compound_mock.json
tests/annotators/data/opentargets_gene_compound_mock_data.json
tests/annotators/data/opentargets_go_mock_data.json
tests/annotators/data/opentargets_reactome_mock_data.json
tests/annotators/data/pubchem_mock_data.json
tests/annotators/data/wikidata_mock_data.json
tests/graph/test_rdf.py
tests/graph/data/combined_df_mock_data.json
tests/graph/data/combined_metadata_mock_data.json