├── .dockerignore ├── .github ├── CODEOWNERS ├── copilot-instructions.md ├── scripts │ ├── count_loc.py │ └── run_examples.py └── workflows │ ├── benchmarks.yml │ ├── code-quality.yml │ ├── doc-coverage.yml │ ├── docs.yml │ ├── examples.yml │ ├── fuzzing.yml │ ├── gui-tests.yml │ ├── loc.yml │ ├── property-tests.yml │ ├── pypi-publish.yml │ ├── tests.yml │ ├── tutorial-validation.yml │ ├── type-coverage.yml │ └── verify.yml ├── .gitignore ├── .pre-commit-config.yaml ├── CITATION.cff ├── CONTRIBUTING.md ├── Dockerfile ├── LICENSE ├── MANIFEST.in ├── Makefile ├── PIPE_LEVEL_TESTS_SUMMARY.md ├── README.md ├── background_knowledge └── bk.n3 ├── benchmarks ├── README.md ├── __init__.py ├── bench_aggregation.py ├── benchmark_multiplex_centrality.py └── config_benchmark.py ├── book ├── Makefile ├── README.md ├── _static │ └── custom.css ├── appendices │ ├── appendix_a_repo_layout.rst │ ├── appendix_b_docker_deployment.rst │ ├── appendix_c_validation_scripts.rst │ ├── appendix_d_error_handling.rst │ └── appendix_e_api_reference.rst ├── bibliography.rst ├── citation.rst ├── conf.py ├── front_matter.rst ├── index.rst ├── part1_foundations │ ├── chapter01_introduction_motivation.rst │ ├── chapter02_multilayer_basics.rst │ └── chapter03_design_of_py3plex.rst ├── part2_working │ ├── chapter04_installation_getting_started.rst │ ├── chapter05_data_loading_representation.rst │ ├── chapter06_visualization_exploration.rst │ └── chapter07_core_algorithms.rst ├── part3_dsl │ ├── chapter08_intro_dsl.rst │ ├── chapter09_builder_api_explain.rst │ ├── chapter10_advanced_queries_workflows.rst │ └── chapter11_limitations_stability.rst ├── part4_case_studies │ ├── chapter12_case_study_1.rst │ ├── chapter13_case_study_2.rst │ └── chapter14_case_study_3.rst └── part5_systems │ ├── chapter15_testing_validation.rst │ ├── chapter16_reproducible_environments.rst │ └── chapter17_gui_overview.rst ├── create_mosaic_banner.py ├── create_showcase_flow.py ├── datasets ├── community.dat ├── cora.mat ├── ecommerce_0.gml ├── ecommerce_1.gml ├── ecommerce_15k.gml ├── ecommerce_2.gml ├── ecommerce_3.gml ├── edgeList.txt ├── embedding_coordinates.json ├── epigenetics.gpickle ├── example_partition_inputs.n3 ├── extracted_net.txt.gz ├── go.obo.gz ├── goa_human.gaf.gz ├── goslim_mirna.gpickle ├── homo.mat ├── imdb.gpickle ├── imdb_gml.gml ├── intact02.gpickle ├── ions.mat ├── karate.emb ├── labeled_epigenetics.gpickle ├── moscow_activity.txt ├── moscow_edges.txt ├── moscow_layer_mapping.txt ├── multiL.txt ├── multiedgelist.txt ├── multiedgelist2.txt ├── multinet_k100.txt ├── multiplex_example.edgelist ├── network.dat ├── rules.json ├── simple_multiplex.edgelist ├── simple_multiplex.txt ├── soc-Epinions1.edgelist ├── synthetic_multilayer.txt ├── test.edgelist ├── test13.edges ├── test_embedding.emb └── twitterlayers.txt ├── docfiles ├── .gitignore ├── Makefile ├── _images │ ├── hairball.png │ └── multilayer.png ├── _static │ ├── ajax-loader.gif │ ├── alabaster.css │ ├── basic.css │ ├── comment-bright.png │ ├── comment-close.png │ ├── comment.png │ ├── custom.css │ ├── doctools.js │ ├── down-pressed.png │ ├── down.png │ ├── file.png │ ├── jquery-3.1.0.js │ ├── jquery.js │ ├── minus.png │ ├── plotly.min.js │ ├── plus.png │ ├── pygments.css │ ├── searchtools.js │ ├── underscore-1.3.1.js │ ├── underscore.js │ ├── up-pressed.png │ ├── up.png │ └── websupport.js ├── acknowledgements.rst ├── advanced_multilayer_metrics.rst ├── algorithm_guide.rst ├── algorithm_roadmap.rst ├── apidocs.rst ├── architecture.rst ├── basic_usage_analysis.rst ├── basic_usage_analysis_multiplex.rst ├── build_docs.sh ├── check_api_consistency.py ├── check_doc_coverage.py ├── check_type_coverage.py ├── citation.rst ├── concepts │ ├── algorithm_landscape.rst │ ├── design_principles.rst │ ├── multilayer_networks_101.rst │ ├── part_intro.rst │ └── py3plex_core_model.rst ├── conf.py ├── config_workflows.rst ├── contributing.rst ├── core.rst ├── core_idea.rst ├── dependencies_guide.rst ├── deployment │ ├── cli_and_docker.rst │ ├── cli_usage.rst │ ├── part_intro.rst │ └── performance_scalability.rst ├── dev │ ├── code_architecture.rst │ ├── contributing.rst │ ├── development_guide.rst │ ├── part_intro.rst │ └── repo_layout.rst ├── development.rst ├── examples │ ├── index.rst │ └── part_intro.rst ├── generate_all_outputs.py ├── generate_pdf.sh ├── generate_quickstart_outputs.py ├── generate_visualization_images.py ├── getting_started │ ├── common_issues.rst │ ├── installation.rst │ ├── part_intro.rst │ └── tutorial_10min.rst ├── gui.rst ├── gui │ ├── gui_api_reference.rst │ ├── gui_architecture.rst │ ├── gui_deployment.rst │ ├── gui_testing.rst │ ├── gui_user_guide.rst │ └── part_intro.rst ├── gui_architecture.rst ├── gui_testing.rst ├── hairball.png ├── how-to │ ├── build_pipelines.rst │ ├── compute_statistics.rst │ ├── export_serialize.rst │ ├── load_and_build_networks.rst │ ├── part_intro.rst │ ├── query_with_dsl.rst │ ├── reproduce_workflows.rst │ ├── run_community_detection.rst │ ├── run_random_walks.rst │ ├── simulate_dynamics.rst │ └── visualize_networks.rst ├── index.rst ├── index.rst.backup ├── io_serialization.rst ├── logo.png ├── make.bat ├── make_docs.sh ├── multilayer.png ├── multilayer_centrality_matrix_functions.rst ├── multilayer_concepts.rst ├── networkx_interop.rst ├── overview │ ├── key_use_cases.rst │ ├── multilayer_in_2min.rst │ ├── part_intro.rst │ └── what_is_py3plex.rst ├── plugin_system.rst ├── project │ ├── benchmarking.rst │ ├── changelog.rst │ ├── citing.rst │ ├── contributing.rst │ ├── part_intro.rst │ └── roadmap.rst ├── r_interop.rst ├── recipes.rst ├── reference │ ├── acknowledgements.rst │ ├── algorithm_reference.rst │ ├── api_index.rst │ ├── citation_and_acknowledgements.rst │ ├── configuration.rst │ ├── dsl_reference.rst │ └── part_intro.rst ├── ricci_curvature.rst ├── ricci_visualization.rst ├── run_quickstart_snippets.py ├── sir_epidemic_simulator.rst ├── statistical_comparison.rst ├── supra.rst ├── tutorials │ ├── cli_usage.rst │ ├── community_detection.rst │ ├── csv_loading.rst │ ├── docker_usage.rst │ ├── explainable_centrality.rst │ ├── incidence_gadget_encoding.rst │ ├── meta_flow_report.rst │ ├── multilayer_centrality.rst │ ├── multilayer_modularity.rst │ └── network_decomposition.rst ├── user_guide │ ├── case_studies.rst │ ├── community_detection.rst │ ├── dsl.rst │ ├── graph_ops.rst │ ├── io_and_formats.rst │ ├── multilayer_dynamics.rst │ ├── networks.rst │ ├── part_intro.rst │ ├── random_walks_embeddings.rst │ ├── recipes_and_workflows.rst │ ├── statistics.rst │ └── visualization.rst └── visualization_guide.rst ├── docker-compose.yml ├── docs ├── .nojekyll ├── _images │ ├── communities.png │ ├── gui_analyze.png │ ├── gui_export.png │ ├── gui_flower_dashboard.png │ ├── gui_load_data.png │ ├── gui_visualize.png │ ├── hairball.png │ ├── multilayer.png │ ├── multilayer_edge_projection_spring.png │ ├── multilayer_ego_node3_1hop.png │ ├── multilayer_flow.png │ ├── multilayer_radial_with_inter.png │ ├── multilayer_sankey_diagram.png │ ├── multilayer_small_multiples_shared.png │ ├── multilayer_supra_heatmap_inter.png │ ├── multiplex.png │ ├── py3plex_showcase.png │ └── supra.png ├── _sources │ ├── acknowledgements.rst.txt │ ├── advanced_multilayer_metrics.rst.txt │ ├── algorithm_guide.rst.txt │ ├── algorithm_roadmap.rst.txt │ ├── apidocs.rst.txt │ ├── architecture.rst.txt │ ├── basic_usage_analysis.rst.txt │ ├── basic_usage_analysis_multiplex.rst.txt │ ├── citation.rst.txt │ ├── concepts │ │ ├── algorithm_landscape.rst.txt │ │ ├── design_principles.rst.txt │ │ ├── multilayer_networks_101.rst.txt │ │ ├── part_intro.rst.txt │ │ └── py3plex_core_model.rst.txt │ ├── config_workflows.rst.txt │ ├── contributing.rst.txt │ ├── core.rst.txt │ ├── core_idea.rst.txt │ ├── dependencies_guide.rst.txt │ ├── deployment │ │ ├── cli_and_docker.rst.txt │ │ ├── cli_usage.rst.txt │ │ ├── part_intro.rst.txt │ │ └── performance_scalability.rst.txt │ ├── dev │ │ ├── code_architecture.rst.txt │ │ ├── contributing.rst.txt │ │ ├── development_guide.rst.txt │ │ ├── part_intro.rst.txt │ │ └── repo_layout.rst.txt │ ├── development.rst.txt │ ├── examples │ │ ├── index.rst.txt │ │ └── part_intro.rst.txt │ ├── getting_started │ │ ├── common_issues.rst.txt │ │ ├── installation.rst.txt │ │ ├── part_intro.rst.txt │ │ └── tutorial_10min.rst.txt │ ├── gui.rst.txt │ ├── gui │ │ ├── gui_api_reference.rst.txt │ │ ├── gui_architecture.rst.txt │ │ ├── gui_deployment.rst.txt │ │ ├── gui_testing.rst.txt │ │ ├── gui_user_guide.rst.txt │ │ └── part_intro.rst.txt │ ├── gui_architecture.rst.txt │ ├── gui_testing.rst.txt │ ├── how-to │ │ ├── build_pipelines.rst.txt │ │ ├── compute_statistics.rst.txt │ │ ├── export_serialize.rst.txt │ │ ├── load_and_build_networks.rst.txt │ │ ├── part_intro.rst.txt │ │ ├── query_with_dsl.rst.txt │ │ ├── reproduce_workflows.rst.txt │ │ ├── run_community_detection.rst.txt │ │ ├── run_random_walks.rst.txt │ │ ├── simulate_dynamics.rst.txt │ │ └── visualize_networks.rst.txt │ ├── index.rst.txt │ ├── io_serialization.rst.txt │ ├── multilayer_centrality_matrix_functions.rst.txt │ ├── multilayer_concepts.rst.txt │ ├── networkx_interop.rst.txt │ ├── overview │ │ ├── key_use_cases.rst.txt │ │ ├── multilayer_in_2min.rst.txt │ │ ├── part_intro.rst.txt │ │ └── what_is_py3plex.rst.txt │ ├── plugin_system.rst.txt │ ├── project │ │ ├── benchmarking.rst.txt │ │ ├── changelog.rst.txt │ │ ├── citing.rst.txt │ │ ├── contributing.rst.txt │ │ ├── part_intro.rst.txt │ │ └── roadmap.rst.txt │ ├── r_interop.rst.txt │ ├── recipes.rst.txt │ ├── reference │ │ ├── acknowledgements.rst.txt │ │ ├── algorithm_reference.rst.txt │ │ ├── api_index.rst.txt │ │ ├── citation_and_acknowledgements.rst.txt │ │ ├── configuration.rst.txt │ │ ├── dsl_reference.rst.txt │ │ └── part_intro.rst.txt │ ├── ricci_curvature.rst.txt │ ├── ricci_visualization.rst.txt │ ├── sir_epidemic_simulator.rst.txt │ ├── statistical_comparison.rst.txt │ ├── supra.rst.txt │ ├── tutorials │ │ ├── cli_usage.rst.txt │ │ ├── community_detection.rst.txt │ │ ├── csv_loading.rst.txt │ │ ├── docker_usage.rst.txt │ │ ├── explainable_centrality.rst.txt │ │ ├── incidence_gadget_encoding.rst.txt │ │ ├── meta_flow_report.rst.txt │ │ ├── multilayer_centrality.rst.txt │ │ ├── multilayer_modularity.rst.txt │ │ └── network_decomposition.rst.txt │ ├── user_guide │ │ ├── case_studies.rst.txt │ │ ├── community_detection.rst.txt │ │ ├── dsl.rst.txt │ │ ├── graph_ops.rst.txt │ │ ├── io_and_formats.rst.txt │ │ ├── multilayer_dynamics.rst.txt │ │ ├── networks.rst.txt │ │ ├── part_intro.rst.txt │ │ ├── random_walks_embeddings.rst.txt │ │ ├── recipes_and_workflows.rst.txt │ │ ├── statistics.rst.txt │ │ └── visualization.rst.txt │ └── visualization_guide.rst.txt ├── _static │ ├── _sphinx_javascript_frameworks_compat.js │ ├── ajax-loader.gif │ ├── alabaster.css │ ├── basic.css │ ├── comment-bright.png │ ├── comment-close.png │ ├── comment.png │ ├── css │ │ ├── badge_only.css │ │ ├── fonts │ │ │ ├── Roboto-Slab-Bold.woff │ │ │ ├── Roboto-Slab-Bold.woff2 │ │ │ ├── Roboto-Slab-Regular.woff │ │ │ ├── Roboto-Slab-Regular.woff2 │ │ │ ├── fontawesome-webfont.eot │ │ │ ├── fontawesome-webfont.svg │ │ │ ├── fontawesome-webfont.ttf │ │ │ ├── fontawesome-webfont.woff │ │ │ ├── fontawesome-webfont.woff2 │ │ │ ├── lato-bold-italic.woff │ │ │ ├── lato-bold-italic.woff2 │ │ │ ├── lato-bold.woff │ │ │ ├── lato-bold.woff2 │ │ │ ├── lato-normal-italic.woff │ │ │ ├── lato-normal-italic.woff2 │ │ │ ├── lato-normal.woff │ │ │ └── lato-normal.woff2 │ │ └── theme.css │ ├── custom.css │ ├── doctools.js │ ├── documentation_options.js │ ├── down-pressed.png │ ├── down.png │ ├── file.png │ ├── fonts │ │ ├── Lato │ │ │ ├── lato-bold.eot │ │ │ ├── lato-bold.ttf │ │ │ ├── lato-bold.woff │ │ │ ├── lato-bold.woff2 │ │ │ ├── lato-bolditalic.eot │ │ │ ├── lato-bolditalic.ttf │ │ │ ├── lato-bolditalic.woff │ │ │ ├── lato-bolditalic.woff2 │ │ │ ├── lato-italic.eot │ │ │ ├── lato-italic.ttf │ │ │ ├── lato-italic.woff │ │ │ ├── lato-italic.woff2 │ │ │ ├── lato-regular.eot │ │ │ ├── lato-regular.ttf │ │ │ ├── lato-regular.woff │ │ │ └── lato-regular.woff2 │ │ └── RobotoSlab │ │ │ ├── roboto-slab-v7-bold.eot │ │ │ ├── roboto-slab-v7-bold.ttf │ │ │ ├── roboto-slab-v7-bold.woff │ │ │ ├── roboto-slab-v7-bold.woff2 │ │ │ ├── roboto-slab-v7-regular.eot │ │ │ ├── roboto-slab-v7-regular.ttf │ │ │ ├── roboto-slab-v7-regular.woff │ │ │ └── roboto-slab-v7-regular.woff2 │ ├── jquery-3.1.0.js │ ├── jquery.js │ ├── js │ │ ├── badge_only.js │ │ ├── theme.js │ │ └── versions.js │ ├── language_data.js │ ├── logo.png │ ├── minus.png │ ├── plotly.min.js │ ├── plus.png │ ├── pygments.css │ ├── searchtools.js │ ├── sphinx_highlight.js │ ├── underscore-1.3.1.js │ ├── underscore.js │ ├── up-pressed.png │ ├── up.png │ └── websupport.js ├── acknowledgements.html ├── advanced_multilayer_metrics.html ├── algorithm_guide.html ├── algorithm_roadmap.html ├── apidocs.html ├── architecture.html ├── basic_usage_analysis.html ├── basic_usage_analysis_multiplex.html ├── citation.html ├── concepts │ ├── algorithm_landscape.html │ ├── design_principles.html │ ├── multilayer_networks_101.html │ ├── part_intro.html │ └── py3plex_core_model.html ├── config_workflows.html ├── contributing.html ├── core.html ├── core_idea.html ├── dependencies_guide.html ├── deployment │ ├── cli_and_docker.html │ ├── cli_usage.html │ ├── part_intro.html │ └── performance_scalability.html ├── dev │ ├── code_architecture.html │ ├── contributing.html │ ├── development_guide.html │ ├── part_intro.html │ └── repo_layout.html ├── development.html ├── examples │ ├── index.html │ └── part_intro.html ├── genindex.html ├── getting_started │ ├── common_issues.html │ ├── installation.html │ ├── part_intro.html │ └── tutorial_10min.html ├── gui.html ├── gui │ ├── example_images │ │ ├── gui_analyze.png │ │ ├── gui_export.png │ │ ├── gui_flower_dashboard.png │ │ ├── gui_load_data.png │ │ └── gui_visualize.png │ ├── gui_api_reference.html │ ├── gui_architecture.html │ ├── gui_deployment.html │ ├── gui_testing.html │ ├── gui_user_guide.html │ └── part_intro.html ├── gui_architecture.html ├── gui_testing.html ├── how-to │ ├── build_pipelines.html │ ├── compute_statistics.html │ ├── export_serialize.html │ ├── load_and_build_networks.html │ ├── part_intro.html │ ├── query_with_dsl.html │ ├── reproduce_workflows.html │ ├── run_community_detection.html │ ├── run_random_walks.html │ ├── simulate_dynamics.html │ └── visualize_networks.html ├── index.html ├── io_serialization.html ├── latex │ ├── LICRcyr2utf8.xdy │ ├── LICRlatin2utf8.xdy │ ├── LatinRules.xdy │ ├── Makefile │ ├── communities.png │ ├── gui_analyze.png │ ├── gui_export.png │ ├── gui_flower_dashboard.png │ ├── gui_load_data.png │ ├── gui_visualize.png │ ├── hairball.png │ ├── latexmkjarc │ ├── latexmkrc │ ├── logo.png │ ├── make.bat │ ├── multilayer.png │ ├── multilayer_edge_projection_spring.png │ ├── multilayer_ego_node3_1hop.png │ ├── multilayer_flow.png │ ├── multilayer_radial_with_inter.png │ ├── multilayer_sankey_diagram.png │ ├── multilayer_small_multiples_shared.png │ ├── multilayer_supra_heatmap_inter.png │ ├── multiplex.png │ ├── py3plex.aux │ ├── py3plex.fdb_latexmk │ ├── py3plex.fls │ ├── py3plex.idx │ ├── py3plex.ilg │ ├── py3plex.ind │ ├── py3plex.log │ ├── py3plex.out │ ├── py3plex.pdf │ ├── py3plex.tex │ ├── py3plex.toc │ ├── py3plex_showcase.png │ ├── python.ist │ ├── sphinx.sty │ ├── sphinx.xdy │ ├── sphinxhighlight.sty │ ├── sphinxhowto.cls │ ├── sphinxlatexadmonitions.sty │ ├── sphinxlatexcontainers.sty │ ├── sphinxlatexgraphics.sty │ ├── sphinxlatexindbibtoc.sty │ ├── sphinxlatexlists.sty │ ├── sphinxlatexliterals.sty │ ├── sphinxlatexnumfig.sty │ ├── sphinxlatexobjects.sty │ ├── sphinxlatexshadowbox.sty │ ├── sphinxlatexstyleheadings.sty │ ├── sphinxlatexstylepage.sty │ ├── sphinxlatexstyletext.sty │ ├── sphinxlatextables.sty │ ├── sphinxmanual.cls │ ├── sphinxmessages.sty │ ├── sphinxoptionsgeometry.sty │ ├── sphinxoptionshyperref.sty │ ├── sphinxpackageboxes.sty │ ├── sphinxpackagecyrillic.sty │ ├── sphinxpackagefootnote.sty │ └── sphinxpackagesubstitutefont.sty ├── multilayer_centrality_matrix_functions.html ├── multilayer_concepts.html ├── networkx_interop.html ├── objects.inv ├── overview │ ├── key_use_cases.html │ ├── multilayer_in_2min.html │ ├── part_intro.html │ └── what_is_py3plex.html ├── plugin_system.html ├── project │ ├── benchmarking.html │ ├── changelog.html │ ├── citing.html │ ├── contributing.html │ ├── part_intro.html │ └── roadmap.html ├── py-modindex.html ├── py3plex_book.pdf ├── py3plex_documentation.pdf ├── r_interop.html ├── recipes.html ├── reference │ ├── acknowledgements.html │ ├── algorithm_reference.html │ ├── api_index.html │ ├── citation_and_acknowledgements.html │ ├── configuration.html │ ├── dsl_reference.html │ └── part_intro.html ├── ricci_curvature.html ├── ricci_visualization.html ├── search.html ├── searchindex.js ├── sir_epidemic_simulator.html ├── statistical_comparison.html ├── supra.html ├── tutorials │ ├── cli_usage.html │ ├── community_detection.html │ ├── csv_loading.html │ ├── docker_usage.html │ ├── explainable_centrality.html │ ├── incidence_gadget_encoding.html │ ├── meta_flow_report.html │ ├── multilayer_centrality.html │ ├── multilayer_modularity.html │ └── network_decomposition.html ├── user_guide │ ├── case_studies.html │ ├── community_detection.html │ ├── dsl.html │ ├── example_images │ │ ├── multilayer_edge_projection_circular.png │ │ ├── multilayer_edge_projection_custom.png │ │ ├── multilayer_edge_projection_spring.png │ │ ├── multilayer_ego_circular.png │ │ ├── multilayer_ego_node3_1hop.png │ │ ├── multilayer_ego_node3_2hop.png │ │ ├── multilayer_ego_subset.png │ │ ├── multilayer_flow.png │ │ ├── multilayer_radial_compact.png │ │ ├── multilayer_radial_intra_only.png │ │ ├── multilayer_radial_with_inter.png │ │ ├── multilayer_sankey_diagram.png │ │ ├── multilayer_small_multiples_circular.png │ │ ├── multilayer_small_multiples_independent.png │ │ ├── multilayer_small_multiples_shared.png │ │ ├── multilayer_supra_heatmap_inter.png │ │ ├── multilayer_supra_heatmap_intra.png │ │ ├── multilayer_supra_heatmap_rdylbu.png │ │ └── py3plex_showcase.png │ ├── graph_ops.html │ ├── io_and_formats.html │ ├── multilayer_dynamics.html │ ├── networks.html │ ├── part_intro.html │ ├── random_walks_embeddings.html │ ├── recipes_and_workflows.html │ ├── statistics.html │ └── visualization.html └── visualization_guide.html ├── example_images ├── README.md ├── animation.gif ├── arch.odg ├── arch.pdf ├── biomine_community.png ├── communities.png ├── communities2.png ├── complete_analysis.png ├── diagram.png ├── ego_network_comparison.png ├── embedding.png ├── example_embedding.png ├── gui_analyze.png ├── gui_export.png ├── gui_flower_dashboard.png ├── gui_load_data.png ├── gui_visualize.png ├── hairball.png ├── intact_0_BH.png ├── intact_100_BH.png ├── intact_10_BH.png ├── learning_lp.png ├── multilayer.png ├── multilayer_edge_projection_circular.png ├── multilayer_edge_projection_custom.png ├── multilayer_edge_projection_spring.png ├── multilayer_ego_circular.png ├── multilayer_ego_node3_1hop.png ├── multilayer_ego_node3_2hop.png ├── multilayer_ego_subset.png ├── multilayer_flow.png ├── multilayer_radial_compact.png ├── multilayer_radial_intra_only.png ├── multilayer_radial_with_inter.png ├── multilayer_sankey_diagram.png ├── multilayer_small_multiples_circular.png ├── multilayer_small_multiples_independent.png ├── multilayer_small_multiples_shared.png ├── multilayer_supra_heatmap_inter.png ├── multilayer_supra_heatmap_intra.png ├── multilayer_supra_heatmap_rdylbu.png ├── multiplex.png ├── networkx_wrapper.png ├── part1.png ├── part2.png ├── py3plex_banner_horizontal.png ├── py3plex_mosaic_banner.png ├── py3plex_showcase.png ├── radial_layouts_comparison.png ├── slices.png ├── snps_data.png ├── spreading.png ├── supra.png ├── synthetic.png ├── temporal.png ├── tutorial_network.png └── tutorial_network_communities.png ├── examples ├── README.md ├── advanced │ ├── README.md │ ├── example_CBSSD.py │ ├── example_PPR.py │ ├── example_decomposition_and_classification.py │ ├── example_decomposition_ground_truth.py │ ├── example_dynamics_core.py │ ├── example_embedding_construction.py │ ├── example_embedding_visualization.py │ ├── example_incidence_gadget_encoding.py │ ├── example_inverse_network.py │ ├── example_layer_extraction.py │ ├── example_manipulation.py │ ├── example_multilayer_vectorized_aggregation.py │ ├── example_multiplex_aggregate.py │ ├── example_multiplex_dynamics.py │ ├── example_n2v_embedding.py │ ├── example_network_decomposition.py │ ├── example_network_decomposition_different_meta_paths.py │ ├── example_numeric_encoding.py │ ├── example_random_walks.py │ ├── example_ricci_curvature.py │ ├── example_semantic_enrichment.py │ ├── example_sir_multiplex.py │ ├── example_spreading.py │ ├── example_supra_adjacency.py │ ├── example_tensorial_manipulation.py │ ├── example_tensorial_manipulation_headless.py │ └── example_vectorized_aggregation.py ├── cli │ ├── README.md │ ├── example_1_basic_workflow.sh │ ├── example_2_piping_workflows.sh │ └── example_3_dsl_queries.sh ├── communities │ ├── README.md │ ├── example_community_detection.py │ ├── example_community_multiplex.py │ ├── example_label_propagation.py │ ├── example_leiden_multilayer.py │ ├── example_multilayer_modularity.py │ └── example_multiplex_community_detection.py ├── dynamics │ ├── README.md │ ├── random_walk.py │ ├── sir_epidemic.py │ └── sis_dynamics.py ├── getting_started │ ├── README.md │ ├── example_datasets.py │ ├── example_multilayer_functionality.py │ ├── example_networkx_wrapper.py │ ├── example_networkx_wrapper_kwargs.py │ ├── example_nx_wrapper.py │ ├── example_random_generator.py │ ├── example_random_generators_advanced.py │ └── tutorial_10min.py ├── io_and_data │ ├── README.md │ ├── example_IO.py │ ├── example_immutable_mode.py │ ├── example_lazy_evaluation_caching.py │ ├── example_multiplex_generic_parser.py │ ├── example_new_io.py │ ├── example_save_to_arrow.py │ ├── example_save_to_edgelist.py │ ├── example_save_to_gpickle.py │ └── example_schema_validation.py ├── network_analysis │ ├── README.md │ ├── compare_multilayer_networks_example.py │ ├── example_centrality_bench.py │ ├── example_centrality_toolkit.py │ ├── example_dsl_advanced.py │ ├── example_dsl_builder_api.py │ ├── example_dsl_community_detection.py │ ├── example_dsl_community_filtering.py │ ├── example_dsl_custom_operators.py │ ├── example_dsl_dynamics.py │ ├── example_dsl_export.py │ ├── example_dsl_operators_advanced.py │ ├── example_dsl_queries.py │ ├── example_entanglement.py │ ├── example_explainable_centrality.py │ ├── example_extended_centrality.py │ ├── example_layer_similarity.py │ ├── example_meta_flow_report.py │ ├── example_multilayer_centrality.py │ ├── example_multilayer_statistics.py │ ├── example_multirank.py │ ├── example_network_statistics.py │ ├── example_networkx_node_similarity.py │ ├── example_new_multiplex_metrics.py │ ├── example_powerlaw_computation.py │ ├── example_robustness_centrality.py │ ├── example_statistical_report.py │ ├── example_temporal_networks.py │ └── example_versatility.py ├── pipelines │ ├── README.md │ ├── example_1_basic_stats.py │ ├── example_2_aggregation.py │ ├── example_3_community_detection.py │ ├── example_4_leiden_multilayer.py │ ├── example_5_filtering.py │ ├── example_6_complex_pipeline.py │ └── example_7_save_load.py ├── r_interop_example.py ├── visualization │ ├── benchmark_layouts.py │ ├── example_animation.py │ ├── example_community_visualization.py │ ├── example_interactive_diagonal.py │ ├── example_interactive_hairball.py │ ├── example_interactive_multilayer.py │ ├── example_multilayer_edge_projection.py │ ├── example_multilayer_ego.py │ ├── example_multilayer_flow.py │ ├── example_multilayer_radial_layers.py │ ├── example_multilayer_small_multiples.py │ ├── example_multilayer_supra_heatmap.py │ ├── example_multilayer_visualization.py │ ├── example_plot_intact.py │ ├── example_ricci_flow_visualization.py │ ├── example_twitter_multiplex_visualization.py │ └── example_visualization.py └── workflows │ ├── README.md │ ├── comparison_config.json │ ├── dense_network.png │ ├── e2e_analysis_example.ipynb │ ├── example_config.yaml │ ├── example_config_workflow.py │ ├── example_network.png │ ├── example_plugin_usage.py │ ├── file_network_viz.png │ ├── generated_network_viz.png │ ├── load_and_compare.json │ ├── load_from_file.yaml │ ├── loaded_network.png │ ├── sample_network.graphml │ ├── sparse_network.png │ └── statistical_comparison_example.ipynb ├── fuzzing ├── Dockerfile ├── README.md ├── fuzz_dsl.py ├── fuzz_load_network.py ├── fuzz_parse_line.py ├── run_fuzzing.sh └── seeds │ ├── dsl_and_operator.txt │ ├── dsl_basic_select.txt │ ├── dsl_compute_betweenness.txt │ ├── dsl_compute_degree.txt │ ├── dsl_degree_filter.txt │ ├── dsl_malformed_variants.txt │ ├── dsl_not_operator.txt │ ├── dsl_or_operator.txt │ ├── dsl_select_edges.txt │ ├── dsl_select_layer.txt │ ├── malformed_variants.txt │ ├── minimal_multiplex.txt │ ├── simple_edgelist.txt │ └── small_multiedgelist.txt ├── gui ├── .dockerignore ├── .env.example ├── .gitignore ├── Dockerfile.api ├── Dockerfile.frontend ├── Dockerfile.nginx ├── Makefile ├── README.md ├── api │ ├── app │ │ ├── __init__.py │ │ ├── deps.py │ │ ├── main.py │ │ ├── routes │ │ │ ├── __init__.py │ │ │ ├── analysis.py │ │ │ ├── cache.py │ │ │ ├── graphs.py │ │ │ ├── health.py │ │ │ ├── jobs.py │ │ │ ├── upload.py │ │ │ └── workspace.py │ │ ├── schemas.py │ │ ├── services │ │ │ ├── __init__.py │ │ │ ├── community.py │ │ │ ├── filters.py │ │ │ ├── io.py │ │ │ ├── layouts.py │ │ │ ├── metrics.py │ │ │ ├── model.py │ │ │ ├── viz.py │ │ │ └── workspace.py │ │ ├── utils │ │ │ ├── __init__.py │ │ │ └── logging.py │ │ └── workers │ │ │ ├── __init__.py │ │ │ ├── celery_app.py │ │ │ └── tasks.py │ ├── pyproject.toml │ └── pytest.ini ├── ci │ ├── api-tests │ │ ├── README.md │ │ ├── test_health.py │ │ ├── test_multiedgelist_parsing.py │ │ ├── test_performance_optimizations.py │ │ ├── test_upload.py │ │ └── test_user_journey_centrality.py │ ├── e2e.playwright.config.ts │ └── frontend-tests │ │ └── smoke.spec.ts ├── compose.gpu.yml ├── data │ ├── .gitkeep │ ├── artifacts │ │ └── .gitkeep │ ├── uploads │ │ └── .gitkeep │ └── workspaces │ │ └── .gitkeep ├── demo_improvements.py ├── docker-compose.yml ├── frontend │ ├── index.html │ ├── package.json │ ├── postcss.config.cjs │ ├── src │ │ ├── App.tsx │ │ ├── app.css │ │ ├── components │ │ │ ├── CommandPalette.tsx │ │ │ ├── GraphCanvas.tsx │ │ │ ├── InspectPanel.tsx │ │ │ ├── JobCenter.tsx │ │ │ ├── LayerPanel.tsx │ │ │ ├── LoadingProgress.tsx │ │ │ ├── ResultsTable.tsx │ │ │ ├── SearchBar.tsx │ │ │ ├── ShortcutsHelp.tsx │ │ │ ├── ThemeToggle.tsx │ │ │ ├── ToastContainer.tsx │ │ │ ├── Toasts.tsx │ │ │ ├── Tooltip.tsx │ │ │ └── Uploader.tsx │ │ ├── hooks │ │ │ ├── useCommandPalette.ts │ │ │ ├── useDarkMode.ts │ │ │ ├── useKeyboardShortcuts.ts │ │ │ └── useToasts.ts │ │ ├── lib │ │ │ ├── api.ts │ │ │ └── store.ts │ │ ├── main.tsx │ │ ├── pages │ │ │ ├── Analyze.tsx │ │ │ ├── Export.tsx │ │ │ ├── LoadData.tsx │ │ │ └── Visualize.tsx │ │ └── vite-env.d.ts │ ├── tailwind.config.cjs │ ├── tsconfig.json │ ├── tsconfig.node.json │ └── vite.config.ts ├── nginx │ └── nginx.conf ├── run.sh ├── toy_network.edgelist └── worker │ └── Dockerfile ├── llm.md ├── multilayer_datasets ├── MLKing │ ├── MLKing2013_activity.txt │ ├── MLKing2013_layers.txt │ ├── MLKing2013_multiplex.edges │ └── MLKing2013_nodes.txt └── aarhusCS │ ├── CS-Aarhus_layers.txt │ ├── CS-Aarhus_multiplex.edges │ └── CS-Aarhus_nodes.txt ├── py3plex ├── __init__.py ├── __main__.py ├── algorithms │ ├── __init__.py │ ├── advanced_random_generators.py │ ├── attribute_correlation.py │ ├── centrality │ │ ├── __init__.py │ │ └── explain.py │ ├── centrality_toolkit.py │ ├── community_comparison.py │ ├── community_detection │ │ ├── NoRC.py │ │ ├── __init__.py │ │ ├── community_louvain.py │ │ ├── community_measures.py │ │ ├── community_ranking.py │ │ ├── community_wrapper.py │ │ ├── infomap │ │ │ ├── .dockerignore │ │ │ ├── .gitignore │ │ │ ├── .hgignore │ │ │ ├── CHANGES.txt │ │ │ ├── Dockerfile │ │ │ ├── LICENSE_AGPLv3.txt │ │ │ ├── Makefile │ │ │ ├── __init__.py │ │ │ ├── _infomap.so │ │ │ ├── docker-compose.yaml │ │ │ ├── examples │ │ │ │ ├── R │ │ │ │ │ ├── Makefile │ │ │ │ │ ├── example-bipartite.R │ │ │ │ │ ├── example-igraph.R │ │ │ │ │ ├── example-minimal.R │ │ │ │ │ └── load-infomap.R │ │ │ │ ├── cpp │ │ │ │ │ ├── Infomap-igraph-interface-library │ │ │ │ │ │ ├── Makefile │ │ │ │ │ │ └── src │ │ │ │ │ │ │ ├── Infomap-igraph-interface.cpp │ │ │ │ │ │ │ └── Infomap-igraph-interface.h │ │ │ │ │ ├── igraph │ │ │ │ │ │ ├── Makefile │ │ │ │ │ │ └── example-igraph.cpp │ │ │ │ │ └── minimal │ │ │ │ │ │ ├── Makefile │ │ │ │ │ │ ├── example.cpp │ │ │ │ │ │ ├── mem-example.cpp │ │ │ │ │ │ └── multi-example.cpp │ │ │ │ ├── js │ │ │ │ │ ├── Infomap-worker.html │ │ │ │ │ └── Makefile │ │ │ │ └── python │ │ │ │ │ ├── Makefile │ │ │ │ │ ├── example-bipartite.py │ │ │ │ │ ├── example-file-io.py │ │ │ │ │ ├── example-multiplex.py │ │ │ │ │ ├── example-networkx.py │ │ │ │ │ ├── example-simple.py │ │ │ │ │ ├── example-trigram-expanded.py │ │ │ │ │ ├── example-trigram.py │ │ │ │ │ └── infomap-examples.ipynb │ │ │ ├── infomap.py │ │ │ ├── interfaces │ │ │ │ ├── js │ │ │ │ │ └── pre-worker-module.js │ │ │ │ ├── python │ │ │ │ │ └── setup.py │ │ │ │ └── swig │ │ │ │ │ ├── Config.i │ │ │ │ │ ├── Date.i │ │ │ │ │ ├── HierarchicalNetwork.i │ │ │ │ │ ├── Infomap.i │ │ │ │ │ ├── MemNetwork.i │ │ │ │ │ ├── MultiplexNetwork.i │ │ │ │ │ └── Network.i │ │ │ ├── ninetriangles.net │ │ │ └── src │ │ │ │ ├── Infomap.cpp │ │ │ │ ├── Infomap.h │ │ │ │ ├── Informatter.cpp │ │ │ │ ├── infomap │ │ │ │ ├── Edge.h │ │ │ │ ├── FlowNetwork.cpp │ │ │ │ ├── FlowNetwork.h │ │ │ │ ├── InfomapBase.cpp │ │ │ │ ├── InfomapBase.h │ │ │ │ ├── InfomapContext.cpp │ │ │ │ ├── InfomapContext.h │ │ │ │ ├── InfomapGreedy.h │ │ │ │ ├── InfomapGreedyCommon.h │ │ │ │ ├── InfomapGreedySpecialized.h │ │ │ │ ├── InfomapGreedyTypeSpecialized.h │ │ │ │ ├── MemFlowNetwork.cpp │ │ │ │ ├── MemFlowNetwork.h │ │ │ │ ├── MemNetwork.cpp │ │ │ │ ├── MemNetwork.h │ │ │ │ ├── MemoryNetworkAdapter.cpp │ │ │ │ ├── MemoryNetworkAdapter.h │ │ │ │ ├── MultiplexNetwork.cpp │ │ │ │ ├── MultiplexNetwork.h │ │ │ │ ├── Network.cpp │ │ │ │ ├── Network.h │ │ │ │ ├── NetworkAdapter.cpp │ │ │ │ ├── NetworkAdapter.h │ │ │ │ ├── Node.cpp │ │ │ │ ├── Node.h │ │ │ │ ├── NodeFactory.h │ │ │ │ ├── TreeData.cpp │ │ │ │ ├── TreeData.h │ │ │ │ ├── flowData.h │ │ │ │ ├── flowData_traits.h │ │ │ │ └── treeIterators.h │ │ │ │ ├── io │ │ │ │ ├── BipartiteClusterReader.cpp │ │ │ │ ├── BipartiteClusterReader.h │ │ │ │ ├── ClusterReader.cpp │ │ │ │ ├── ClusterReader.h │ │ │ │ ├── Config.h │ │ │ │ ├── HierarchicalNetwork.cpp │ │ │ │ ├── HierarchicalNetwork.h │ │ │ │ ├── ProgramInterface.cpp │ │ │ │ ├── ProgramInterface.h │ │ │ │ ├── SafeFile.h │ │ │ │ ├── TreeDataWriter.cpp │ │ │ │ ├── TreeDataWriter.h │ │ │ │ ├── convert.h │ │ │ │ ├── version.cpp │ │ │ │ └── version.h │ │ │ │ └── utils │ │ │ │ ├── Date.h │ │ │ │ ├── FileURI.cpp │ │ │ │ ├── FileURI.h │ │ │ │ ├── Logger.cpp │ │ │ │ ├── Logger.h │ │ │ │ ├── MersenneTwister.h │ │ │ │ ├── Stopwatch.h │ │ │ │ ├── gap_iterator.h │ │ │ │ ├── infomath.h │ │ │ │ └── types.h │ │ ├── leiden_multilayer.py │ │ ├── multilayer_benchmark.py │ │ ├── multilayer_modularity.py │ │ └── node_ranking.py │ ├── curvature │ │ ├── __init__.py │ │ └── ollivier_ricci_multilayer.py │ ├── general │ │ ├── __init__.py │ │ ├── benchmark_classification.py │ │ └── walkers.py │ ├── graph_summarization.py │ ├── hedwig │ │ ├── __init__.py │ │ ├── __main__.py │ │ ├── assets │ │ │ └── builtin.n3 │ │ ├── core │ │ │ ├── __init__.py │ │ │ ├── converters.py │ │ │ ├── example.py │ │ │ ├── helpers.py │ │ │ ├── kb.py │ │ │ ├── load.py │ │ │ ├── predicate.py │ │ │ ├── rule.py │ │ │ ├── settings.py │ │ │ └── term_parsers.py │ │ ├── learners │ │ │ ├── __init__.py │ │ │ ├── bottomup.py │ │ │ ├── learner.py │ │ │ └── optimal.py │ │ └── stats │ │ │ ├── __init__.py │ │ │ ├── adjustment.py │ │ │ ├── scorefunctions.py │ │ │ ├── significance.py │ │ │ └── validate.py │ ├── layer_similarity.py │ ├── meta_flow_report.py │ ├── multicentrality.py │ ├── multilayer_algorithms │ │ ├── __init__.py │ │ ├── centrality.py │ │ ├── entanglement.py │ │ ├── multirank.py │ │ ├── multixrank.py │ │ ├── supra_matrix_function_centrality.py │ │ └── versatility.py │ ├── network_classification │ │ ├── PPR.py │ │ ├── __init__.py │ │ └── label_propagation.py │ ├── node_ranking │ │ ├── __init__.py │ │ └── node_ranking.py │ ├── robustness_testing.py │ ├── sir_multiplex.py │ ├── statistical_report.py │ ├── statistics │ │ ├── __init__.py │ │ ├── basic_statistics.py │ │ ├── bayesian_distances.py │ │ ├── bayesiantests.py │ │ ├── correlation_networks.py │ │ ├── critical_distances.py │ │ ├── enrichment │ │ ├── enrichment.py │ │ ├── enrichment_modules.py │ │ ├── multilayer_statistics.py │ │ ├── powerlaw.py │ │ ├── stats_comparison.py │ │ └── topology.py │ ├── temporal_multiplex │ │ └── __init__.py │ └── term_parsers │ │ └── __init__.py ├── alignment │ ├── __init__.py │ ├── features.py │ ├── metrics.py │ └── solvers.py ├── centrality │ ├── __init__.py │ └── robustness.py ├── cli.py ├── comparison │ ├── __init__.py │ ├── executor.py │ ├── metrics.py │ └── result.py ├── config.py ├── core │ ├── HINMINE │ │ ├── IO.py │ │ ├── __init__.py │ │ ├── dataStructures.py │ │ └── decomposition.py │ ├── __init__.py │ ├── converters.py │ ├── immutable.py │ ├── lazy_evaluation.py │ ├── multinet.py │ ├── nx_compat.py │ ├── parsers.py │ ├── random_generators.py │ ├── schema_validation.py │ ├── supporting.py │ └── types.py ├── datasets │ ├── __init__.py │ ├── _data │ │ ├── aarhus_cs.edges │ │ └── synthetic_multilayer.edges │ ├── _generators.py │ └── _loaders.py ├── dsl │ ├── __init__.py │ ├── ast.py │ ├── builder.py │ ├── context.py │ ├── errors.py │ ├── executor.py │ ├── export.py │ ├── operator_registry.py │ ├── registry.py │ ├── result.py │ └── serializer.py ├── dsl_legacy.py ├── dynamics │ ├── __init__.py │ ├── _utils.py │ ├── ast.py │ ├── builder.py │ ├── compartmental.py │ ├── config.py │ ├── core.py │ ├── errors.py │ ├── executor.py │ ├── models.py │ ├── processes.py │ ├── registry.py │ ├── result.py │ └── serializer.py ├── errors.py ├── exceptions.py ├── graph_ops.py ├── io │ ├── __init__.py │ ├── api.py │ ├── converters.py │ ├── exceptions.py │ ├── formats │ │ ├── __init__.py │ │ ├── arrow_format.py │ │ ├── csv_format.py │ │ └── json_format.py │ └── schema.py ├── lab │ ├── __init__.py │ └── base.py ├── linter.py ├── logging_config.py ├── multinet │ ├── __init__.py │ └── aggregation.py ├── nullmodels │ ├── __init__.py │ ├── executor.py │ ├── models.py │ └── result.py ├── paths │ ├── __init__.py │ ├── algorithms.py │ ├── executor.py │ └── result.py ├── pipeline.py ├── plugins │ ├── __init__.py │ ├── base.py │ ├── examples.py │ └── registry.py ├── profiling.py ├── robustness │ ├── __init__.py │ ├── experiments.py │ └── perturbations.py ├── temporal_utils.py ├── temporal_view.py ├── utils.py ├── validation.py ├── visualization │ ├── __init__.py │ ├── benchmark_visualizations.py │ ├── bezier.py │ ├── colors.py │ ├── drawing_machinery.py │ ├── embedding_visualization │ │ ├── __init__.py │ │ ├── embedding_tools.py │ │ └── embedding_visualization.py │ ├── fa2 │ │ ├── __init__.py │ │ ├── fa2util.c │ │ ├── fa2util.pxd │ │ ├── fa2util.py │ │ └── forceatlas2.py │ ├── layout_algorithms.py │ ├── misc_tools.py │ ├── multilayer.py │ ├── polyfit.py │ ├── ricci_layout.py │ ├── ricci_multilayer_vis.py │ └── sankey.py ├── workflows.py └── wrappers │ ├── __init__.py │ ├── benchmark_nodes.py │ ├── r_interop.py │ └── train_node2vec_embedding.py ├── pyproject.toml └── tests ├── conftest.py ├── demo_improvements.py ├── example_benchmark.csv ├── property ├── __init__.py ├── strategies.py ├── test_basic_statistics_properties.py ├── test_bayesian_distances_properties.py ├── test_bezier_properties.py ├── test_centrality_invariants.py ├── test_centrality_metrics_extended.py ├── test_centrality_rankings.py ├── test_chaining_properties.py ├── test_color_utilities_properties.py ├── test_communities_properties.py ├── test_community_partition_invariants.py ├── test_converters_properties.py ├── test_correlation_networks_properties.py ├── test_dsl_properties.py ├── test_dynamics_properties.py ├── test_edge_operations_properties.py ├── test_entanglement_properties.py ├── test_graph_ops_properties.py ├── test_graph_transformation_properties.py ├── test_io_converters_properties.py ├── test_io_metamorphic_roundtrip.py ├── test_io_roundtrip.py ├── test_isomorphism_invariance.py ├── test_layout_algorithms_properties.py ├── test_logging_config_properties.py ├── test_mpc_properties.py ├── test_multicentrality_properties.py ├── test_multiplex_couplings.py ├── test_network_transformations.py ├── test_node_operations_properties.py ├── test_node_ranking_properties.py ├── test_nullmodels_properties.py ├── test_nx_compat_properties.py ├── test_parsers_properties.py ├── test_paths_properties.py ├── test_polyfit_properties.py ├── test_random_er_statistics.py ├── test_random_gen_extended_properties.py ├── test_random_generators_properties.py ├── test_robustness_properties.py ├── test_schema_validation_properties.py ├── test_stateful_multinet.py ├── test_stateful_multinet_advanced.py ├── test_stateful_multiplex.py ├── test_statistics_properties.py ├── test_stochastic_normalization_properties.py ├── test_subnetwork_algebra.py ├── test_supporting_properties.py ├── test_topology_properties.py ├── test_topology_statistics_properties.py ├── test_utils_mutations.py ├── test_utils_properties.py ├── test_validation_properties.py ├── test_versatility_metamorphic.py ├── test_versatility_properties.py ├── test_walkers_properties.py ├── test_weight_operations_properties.py └── test_workflows_properties.py ├── test_advanced_metrics_properties.py ├── test_aggregation.py ├── test_algorithm_properties.py ├── test_algorithms_init.py ├── test_alignment.py ├── test_centrality_explain.py ├── test_centrality_explain_integration.py ├── test_centrality_robustness.py ├── test_centrality_weight_handling.py ├── test_cli.py ├── test_cli_check.py ├── test_cli_ergonomics.py ├── test_cli_piping.py ├── test_code_improvements.py ├── test_community_detection_modules.py ├── test_community_measures.py ├── test_comparison.py ├── test_config_api.py ├── test_contracts.py ├── test_contracts_extended.py ├── test_core_functionality.py ├── test_core_supporting.py ├── test_crosshair_pure_functions.py ├── test_datasets.py ├── test_doctests.py ├── test_dsl.py ├── test_dsl_community_filtering.py ├── test_dsl_ergonomics.py ├── test_dsl_export.py ├── test_dsl_extensions.py ├── test_dsl_operators.py ├── test_dsl_pipes.py ├── test_dsl_v2.py ├── test_dynamics.py ├── test_dynamics_conservation.py ├── test_dynamics_core.py ├── test_dynamics_reference_runs.py ├── test_edge_cases.py ├── test_edgelist_format.py ├── test_ergonomics.py ├── test_errors.py ├── test_exceptions.py ├── test_fuzzing_properties.py ├── test_graph_ops.py ├── test_incidence_gadget_encoding.py ├── test_infomap_fix.py ├── test_interlayer_links_fix.py ├── test_io_arrow.py ├── test_io_converters.py ├── test_io_exceptions.py ├── test_io_integration.py ├── test_io_roundtrip.py ├── test_io_schema.py ├── test_issue_19_fix.py ├── test_lab.py ├── test_layer_extraction_fix.py ├── test_layout_algorithms.py ├── test_lazy_evaluation.py ├── test_leiden_multilayer.py ├── test_linter.py ├── test_logging_conversion.py ├── test_main.py ├── test_math_invariants.py ├── test_metamorphic.py ├── test_monoplex_nx_wrapper.py ├── test_mpc.py ├── test_multilayer_centrality.py ├── test_multilayer_cornercases.py ├── test_multilayer_edge_fix.py ├── test_multilayer_integration.py ├── test_multilayer_modularity.py ├── test_multilayer_statistics.py ├── test_multilayer_visualizations.py ├── test_multiplex_participation.py ├── test_multiplex_properties.py ├── test_multirank.py ├── test_multixrank.py ├── test_network_conversion.py ├── test_networkx_compatibility.py ├── test_new_algorithms.py ├── test_new_multilayer_metrics.py ├── test_node_ranking_comprehensive.py ├── test_norc.py ├── test_nullmodels.py ├── test_nx_compat_extended.py ├── test_ollivier_ricci_multilayer.py ├── test_parsers_comprehensive.py ├── test_parsers_coverage.py ├── test_paths.py ├── test_performance_core.py ├── test_pipeline.py ├── test_plugin_system.py ├── test_profiling.py ├── test_properties.py ├── test_r_interop.py ├── test_random_generators_additional.py ├── test_random_generators_extended.py ├── test_random_walkers.py ├── test_random_walks.py ├── test_ricci_visualization.py ├── test_robustness.py ├── test_sankey_visualization.py ├── test_sbm_generator.py ├── test_schema_and_immutable.py ├── test_seeding.py ├── test_sir_multiplex.py ├── test_stats_comparison.py ├── test_supporting_extended.py ├── test_supra_matrix_function_centrality.py ├── test_temporal.py ├── test_temporal_builder.py ├── test_utils.py ├── test_utils_coverage.py ├── test_utils_extended.py ├── test_validation.py ├── test_versatility.py ├── test_visualization_benchmark.py ├── test_visualization_bezier.py ├── test_visualization_colors.py ├── test_visualization_imports.py ├── test_visualization_polyfit.py ├── test_visualize_matrix_fix.py ├── test_workflows.py ├── test_wrappers_benchmark_nodes.py ├── test_wrappers_train_node2vec.py ├── time_benchmark.py ├── validate_entanglement_implementation.py ├── validate_monoplex_fix.py ├── 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