CHANGELOG.md
CONTRIBUTING.md
LICENSE
MANIFEST.in
README.md
environment.yml
pyproject.toml
R/run_de.R
data/README.md
data/DAG/go_namespace.json
data/IC/go_ic_hsa.json
data/IC/go_ic_mmu.json
data/KEGG_count_topology/hsa_topology.json
data/KEGG_count_topology/mmu_topology.json
data/annotations/term_size_human.tsv
data/annotations/term_size_mouse.tsv
data/data_u/U_terms_GO_KEGG_hsa.json
data/data_u/U_terms_GO_KEGG_mmu.json
data/ko2pathway/ko2hsa.txt
data/ko2pathway/ko2mmu.txt
data/meta/kegg_meta_hsa.json
data/meta/kegg_meta_mmu.json
data/semantic_resources_v2/go_ic.json
data/semantic_resources_v2/go_namespace.json
data/semantic_resources_v2/manifest.json
docs/ADVANCED.md
docs/OUTPUTS.md
docs/RELEASE.md
docs/SEQUENCE_ANNOTATION.md
examples/README.md
examples/orbit_ocsp_tutorial.ipynb
examples/data/expression/groups.tsv
examples/data/expression/matrix.tsv
examples/data/genes/a_terms.json
examples/data/genes/genes.txt
examples/data/genes/genes_epms.txt
examples/data/sequence/merged/merged_result_1.json
examples/data/sequence/native/id_map.tsv
examples/data/sequence/native/deepgoplus/1.tsv
examples/data/sequence/native/interproscan/1.tsv
examples/data/sequence/native/kofam/1.txt
orbit_ocsp/__init__.py
orbit_ocsp/__main__.py
orbit_ocsp/b_terms_listing.py
orbit_ocsp/b_terms_schema.py
orbit_ocsp/cli.py
orbit_ocsp/data_manager.py
orbit_ocsp/download_data.py
orbit_ocsp/expression_de.py
orbit_ocsp/expression_pipeline.py
orbit_ocsp/list_b_fields.py
orbit_ocsp/permutation_test_terms.py
orbit_ocsp/protein_lookup.py
orbit_ocsp/semantic_two_stage.py
orbit_ocsp/sequence_annotation.py
orbit_ocsp.egg-info/PKG-INFO
orbit_ocsp.egg-info/SOURCES.txt
orbit_ocsp.egg-info/dependency_links.txt
orbit_ocsp.egg-info/entry_points.txt
orbit_ocsp.egg-info/requires.txt
orbit_ocsp.egg-info/top_level.txt
orbit_ocsp/R/run_de.R