LICENSE
NOTICE.md
README.md
pyproject.toml
gin_multiomics.egg-info/PKG-INFO
gin_multiomics.egg-info/SOURCES.txt
gin_multiomics.egg-info/dependency_links.txt
gin_multiomics.egg-info/entry_points.txt
gin_multiomics.egg-info/requires.txt
gin_multiomics.egg-info/top_level.txt
gin_tool/__init__.py
gin_tool/__main__.py
gin_tool/active_tf.py
gin_tool/active_tf_promoter_qc.py
gin_tool/active_tf_rwr.py
gin_tool/analyze.py
gin_tool/benchmark.py
gin_tool/cli.py
gin_tool/context_subgraph.py
gin_tool/debias.py
gin_tool/dogma_chain_repair.py
gin_tool/enrichment.py
gin_tool/flows.py
gin_tool/gin_defaults.py
gin_tool/histone_promoter_sign_qc.py
gin_tool/hme_chain_repair.py
gin_tool/io.py
gin_tool/mapping.py
gin_tool/module_flow.py
gin_tool/modules.py
gin_tool/negative_ppi_feedback.py
gin_tool/node_lists.py
gin_tool/null_context.py
gin_tool/null_rwr.py
gin_tool/pipeline_version.py
gin_tool/propagate.py
gin_tool/regulatory_filter.py
gin_tool/runtime_limits.py
gin_tool/runtime_null.py
gin_tool/schematic.py
gin_tool/signaling_subgraph.py
gin_tool/signed_edge_spn_qc.py
gin_tool/spn_export.py
gin_tool/spn_rehydrate.py
gin_tool/subgraph.py
gin_tool/user_stories.py
gin_tool/subgraph_pipeline/__init__.py
gin_tool/subgraph_pipeline/budget.py
gin_tool/subgraph_pipeline/chromhmm_emission_weights.py
gin_tool/subgraph_pipeline/chromhmm_panel_assemble.py
gin_tool/subgraph_pipeline/connectivity.py
gin_tool/subgraph_pipeline/edge_topology.py
gin_tool/subgraph_pipeline/edge_weight_balance.py
gin_tool/subgraph_pipeline/extract.py
gin_tool/subgraph_pipeline/gin_self_loop.py
gin_tool/subgraph_pipeline/grn_allowlist_prune.py
gin_tool/subgraph_pipeline/interaction_weight_schedule.py
gin_tool/subgraph_pipeline/lcc_multisource_bridge.py
gin_tool/subgraph_pipeline/manifest.py
gin_tool/subgraph_pipeline/met_enzyme_recovery.py
gin_tool/subgraph_pipeline/met_source_seed.py
gin_tool/subgraph_pipeline/metabolite_id_resolve.py
gin_tool/subgraph_pipeline/parallel_util.py
gin_tool/subgraph_pipeline/promoter_edge_policy.py
gin_tool/subgraph_pipeline/protein_self_loop_prune.py
gin_tool/subgraph_pipeline/regulatory_train.py
gin_tool/subgraph_pipeline/role_seed_enrichment.py
gin_tool/subgraph_pipeline/seed_gin_mapping.py
gin_tool/subgraph_pipeline/seeds.py
gin_tool/subgraph_pipeline/signaling_bipartite.py
gin_tool/subgraph_pipeline/spn_degradation.py
gin_tool/subgraph_pipeline/spn_layer_rules.py
gin_tool/subgraph_pipeline/spn_nf_phase.py
gin_tool/subgraph_pipeline/spn_obsidian_export.py
gin_tool/subgraph_pipeline/spn_policy.py
gin_tool/subgraph_pipeline/spn_reasonableness_qc.py
gin_tool/subgraph_pipeline/spn_simulate.py
gin_tool/subgraph_pipeline/spn_simulator_gin.py
gin_tool/subgraph_pipeline/spn_standard_policy.py
gin_tool/subgraph_pipeline/stats.py
gin_tool/subgraph_pipeline/stoichiometry_resolve.py
gin_tool/subgraph_pipeline/ups_degradation_policy.py
gin_tool/subgraph_pipeline/data/ginv2_table1_uc_aliases.json
gin_tool/viz/__init__.py
gin_tool/viz/_select.py
gin_tool/viz/_style.py
gin_tool/viz/corr_clustermap.py
gin_tool/viz/export.py
gin_tool/viz/flows.py
gin_tool/viz/modules.py
gin_tool/viz/network.py
gin_tool/viz/null_charts.py
gin_tool/viz/qc.py
gin_tool/viz/scores.py
scbionet/__init__.py
scbionet/spn/__init__.py
scbionet/spn/graphml_io.py
scbionet/spn/model.py
scbionet/spn/simulator.py
scbionet/spn/version.py
tests/test_sifi_gz_io.py
tests/test_sigpn_engine.py