.Rbuildignore
          
        
          
            
            .gitignore
          
        
          
            
            DESCRIPTION
          
        
          
            
            LICENSE
          
        
          
            
            NAMESPACE
          
        
          
            
            NEWS.md
          
        
          
            
            R/aux_functions.R
          
        
          
            
            R/muxLib_annotated.R
          
        
          
            
            R/muxLib_plot_functions.R
          
        
          
            
            README.Rmd
          
        
          
            
            README.html
          
        
          
            
            README.md
          
        
          
            
            _pkgdown.yml
          
        
          
            
            docs/404.html
          
        
          
            
            docs/LICENSE-text.html
          
        
          
            
            docs/apple-touch-icon-120x120.png
          
        
          
            
            docs/apple-touch-icon-152x152.png
          
        
          
            
            docs/apple-touch-icon-180x180.png
          
        
          
            
            docs/apple-touch-icon-60x60.png
          
        
          
            
            docs/apple-touch-icon-76x76.png
          
        
          
            
            docs/apple-touch-icon.png
          
        
          
            
            docs/articles/index.html
          
        
          
            
            docs/articles/ml_community.html
          
        
          
            
            docs/articles/ml_community_files/header-attrs-2.11/header-attrs.js
          
        
          
            
            docs/articles/ml_community_files/header-attrs-2.7/header-attrs.js
          
        
          
            
            docs/articles/ml_motifs.html
          
        
          
            
            docs/articles/ml_motifs_files/header-attrs-2.11/header-attrs.js
          
        
          
            
            docs/articles/ml_motifs_files/header-attrs-2.7/header-attrs.js
          
        
          
            
            docs/articles/setup_infomap_fanmod.html
          
        
          
            
            docs/articles/setup_infomap_fanmod_files/header-attrs-2.11/header-attrs.js
          
        
          
            
            docs/articles/setup_infomap_fanmod_files/header-attrs-2.7/header-attrs.js
          
        
          
            
            docs/authors.html
          
        
          
            
            docs/bootstrap-toc.css
          
        
          
            
            docs/bootstrap-toc.js
          
        
          
            
            docs/docsearch.css
          
        
          
            
            docs/docsearch.js
          
        
          
            
            docs/favicon-16x16.png
          
        
          
            
            docs/favicon-32x32.png
          
        
          
            
            docs/favicon.ico
          
        
          
            
            docs/index.html
          
        
          
            
            docs/link.svg
          
        
          
            
            docs/logo.png
          
        
          
            
            docs/man/figures/multi_er.png
          
        
          
            
            docs/man/figures/multi_er_fanmod.png
          
        
          
            
            docs/man/figures/multi_sbm.png
          
        
          
            
            docs/man/figures/multi_sbm_infomap2.png
          
        
          
            
            docs/man/figures/multi_sbm_infomap_hp.png
          
        
          
            
            docs/man/figures/multi_sbm_infomap_hp_table.png
          
        
          
            
            docs/man/figures/multi_sbm_infomap_table.png
          
        
          
            
            docs/news/index.html
          
        
          
            
            docs/pkgdown.css
          
        
          
            
            docs/pkgdown.js
          
        
          
            
            docs/pkgdown.yml
          
        
          
            
            docs/reference/BuildDensityMatrixBGS.html
          
        
          
            
            docs/reference/BuildExtendedEdgelistFromSupraAdjacencyMatrix.html
          
        
          
            
            docs/reference/BuildLayersTensor.html
          
        
          
            
            docs/reference/BuildSupraAdjacencyMatrixFromEdgeColoredMatrices.html
          
        
          
            
            docs/reference/BuildSupraAdjacencyMatrixFromExtendedEdgelist.html
          
        
          
            
            docs/reference/BuildSupraTransitionMatrixFromSupraAdjacencyMatrix.html
          
        
          
            
            docs/reference/BuildTransitionMatrixFromEdgeColoredMatrices.html
          
        
          
            
            docs/reference/BuildTransitionMatrixFromSingleLayer.html
          
        
          
            
            docs/reference/CanonicalVector.html
          
        
          
            
            docs/reference/GetAggregateMatrix.html
          
        
          
            
            docs/reference/GetAggregateMatrixFromNetworkList.html
          
        
          
            
            docs/reference/GetAggregateMatrixFromSupraAdjacencyMatrix.html
          
        
          
            
            docs/reference/GetAggregateNetworkFromNetworkList.html
          
        
          
            
            docs/reference/GetAggregateNetworkFromSupraAdjacencyMatrix.html
          
        
          
            
            docs/reference/GetAverageGlobalClustering.html
          
        
          
            
            docs/reference/GetAverageGlobalNodeOverlappingMatrix.html
          
        
          
            
            docs/reference/GetAverageGlobalOverlapping.html
          
        
          
            
            docs/reference/GetAverageGlobalOverlappingMatrix.html
          
        
          
            
            docs/reference/GetConfigurationModelTypeIFromNetworkList.html
          
        
          
            
            docs/reference/GetConfigurationModelTypeIIFromNetworkList.html
          
        
          
            
            docs/reference/GetConnectedComponents.html
          
        
          
            
            docs/reference/GetCoverageEvolutionEdgeColored.html
          
        
          
            
            docs/reference/GetCoverageEvolutionMultilayer.html
          
        
          
            
            docs/reference/GetCoverageEvolutionSingleLayer.html
          
        
          
            
            docs/reference/GetEigenvaluesOfDensityMatrix.html
          
        
          
            
            docs/reference/GetEigenvaluesOfDensityMatrixFromAdjacencyMatrix.html
          
        
          
            
            docs/reference/GetGiantConnectedComponent.html
          
        
          
            
            docs/reference/GetGiantIntersectionComponent.html
          
        
          
            
            docs/reference/GetGiantIntersectionComponentFromNetworkList.html
          
        
          
            
            docs/reference/GetGiantViableComponent.html
          
        
          
            
            docs/reference/GetGiantViableComponentFromNetworkList.html
          
        
          
            
            docs/reference/GetGlobalNumberTriangles.html
          
        
          
            
            docs/reference/GetInterAssortativityTensor.html
          
        
          
            
            docs/reference/GetJensenShannonDivergence.html
          
        
          
            
            docs/reference/GetLaplacianMatrix.html
          
        
          
            
            docs/reference/GetLargestEigenv.html
          
        
          
            
            docs/reference/GetLocalClustering.html
          
        
          
            
            docs/reference/GetMonoplexTriads.html
          
        
          
            
            docs/reference/GetMultiAuthCentrality.html
          
        
          
            
            docs/reference/GetMultiClosenessCentrality.html
          
        
          
            
            docs/reference/GetMultiDegree.html
          
        
          
            
            docs/reference/GetMultiDegreeSum.html
          
        
          
            
            docs/reference/GetMultiEigenvectorCentrality.html
          
        
          
            
            docs/reference/GetMultiHubCentrality.html
          
        
          
            
            docs/reference/GetMultiInDegree.html
          
        
          
            
            docs/reference/GetMultiInDegreeSum.html
          
        
          
            
            docs/reference/GetMultiInStrength.html
          
        
          
            
            docs/reference/GetMultiInStrengthSum.html
          
        
          
            
            docs/reference/GetMultiKCoreCentrality.html
          
        
          
            
            docs/reference/GetMultiKatzCentrality.html
          
        
          
            
            docs/reference/GetMultiOutDegree.html
          
        
          
            
            docs/reference/GetMultiOutDegreeSum.html
          
        
          
            
            docs/reference/GetMultiOutStrength.html
          
        
          
            
            docs/reference/GetMultiOutStrengthSum.html
          
        
          
            
            docs/reference/GetMultiPageRankCentrality.html
          
        
          
            
            docs/reference/GetMultiPathStatistics.html
          
        
          
            
            docs/reference/GetMultiRWCentrality.html
          
        
          
            
            docs/reference/GetMultiStrength.html
          
        
          
            
            docs/reference/GetMultiStrengthSum.html
          
        
          
            
            docs/reference/GetMultilayerCommunities_Infomap.html
          
        
          
            
            docs/reference/GetMultilayerMotifs.html
          
        
          
            
            docs/reference/GetMultilayerMotifsFromNetworkList.html
          
        
          
            
            docs/reference/GetMultilayerReducibility.html
          
        
          
            
            docs/reference/GetMultiplexCommunities_Infomap.html
          
        
          
            
            docs/reference/GetMultiplexTriads.html
          
        
          
            
            docs/reference/GetMultiplexTriadsFromNetworkList.html
          
        
          
            
            docs/reference/GetMultiplexityCentrality.html
          
        
          
            
            docs/reference/GetNormalizedLaplacianMatrix.html
          
        
          
            
            docs/reference/GetRenyiEntropyFromAdjacencyMatrix.html
          
        
          
            
            docs/reference/GetRewiredLayerWithOverlappingEdges.html
          
        
          
            
            docs/reference/GetSPSimilarityMatrix.html
          
        
          
            
            docs/reference/GetSampleMultiplex.html
          
        
          
            
            docs/reference/MultiShortestPathFromNode.html
          
        
          
            
            docs/reference/ShortestPathFromNode.html
          
        
          
            
            docs/reference/SolveEigenvalueProblem.html
          
        
          
            
            docs/reference/SupraAdjacencyToBlockTensor.html
          
        
          
            
            docs/reference/SupraAdjacencyToNetworkList.html
          
        
          
            
            docs/reference/SupraAdjacencyToNodesTensor.html
          
        
          
            
            docs/reference/binarizeMatrix.html
          
        
          
            
            docs/reference/blkdiag.html
          
        
          
            
            docs/reference/buildMultilayerNetworkFromMuxvizFiles.html
          
        
          
            
            docs/reference/diagR.html
          
        
          
            
            docs/reference/figures/backmaps.png
          
        
          
            
            docs/reference/figures/chord.png
          
        
          
            
            docs/reference/figures/colorpalettes.png
          
        
          
            
            docs/reference/figures/funding.png
          
        
          
            
            docs/reference/figures/gui1.png
          
        
          
            
            docs/reference/figures/guiData.png
          
        
          
            
            docs/reference/figures/home.png
          
        
          
            
            docs/reference/figures/layout_type.png
          
        
          
            
            docs/reference/figures/linetypes.png
          
        
          
            
            docs/reference/figures/logo.jpg
          
        
          
            
            docs/reference/figures/logo.png
          
        
          
            
            docs/reference/figures/logo_small.jpg
          
        
          
            
            docs/reference/figures/multi_er.png
          
        
          
            
            docs/reference/figures/multi_er_fanmod.png
          
        
          
            
            docs/reference/figures/multi_sbm.png
          
        
          
            
            docs/reference/figures/multi_sbm_infomap2.png
          
        
          
            
            docs/reference/figures/multi_sbm_infomap_hp.png
          
        
          
            
            docs/reference/figures/multi_sbm_infomap_hp_table.png
          
        
          
            
            docs/reference/figures/multi_sbm_infomap_table.png
          
        
          
            
            docs/reference/figures/mux_BA_3layers.png
          
        
          
            
            docs/reference/figures/network_type.png
          
        
          
            
            docs/reference/figures/plot-1.png
          
        
          
            
            docs/reference/figures/pointtypes.png
          
        
          
            
            docs/reference/figures/sankey.png
          
        
          
            
            docs/reference/getVersatilityProfile.html
          
        
          
            
            docs/reference/index.html
          
        
          
            
            docs/reference/inv.html
          
        
          
            
            docs/reference/kron.html
          
        
          
            
            docs/reference/layoutMultiplex.html
          
        
          
            
            docs/reference/modR.html
          
        
          
            
            docs/reference/multiplot.html
          
        
          
            
            docs/reference/ones.html
          
        
          
            
            docs/reference/plot.multimodules.html
          
        
          
            
            docs/reference/plot.multimotif.html
          
        
          
            
            docs/reference/plot.multiplex.html
          
        
          
            
            docs/reference/plot.multiplex3D.html
          
        
          
            
            docs/reference/plot_multimodules.html
          
        
          
            
            docs/reference/plot_multimotif.html
          
        
          
            
            docs/reference/plot_multiplex.html
          
        
          
            
            docs/reference/plot_multiplex3D.html
          
        
          
            
            docs/reference/rand.html
          
        
          
            
            docs/reference/reshapeR.html
          
        
          
            
            docs/reference/spcan.html
          
        
          
            
            docs/reference/speye.html
          
        
          
            
            docs/reference/sumR.html
          
        
          
            
            docs/reference/traceR.html
          
        
          
            
            docs/reference/zeros.html
          
        
          
            
            docs/sitemap.xml
          
        
          
            
            examples-scripts/README.md
          
        
          
            
            examples-scripts/connected_components.R
          
        
          
            
            examples-scripts/data/StarWars/LICENSE.txt
          
        
          
            
            examples-scripts/data/StarWars/README.txt
          
        
          
            
            examples-scripts/data/StarWars/StarWars_config.txt
          
        
          
            
            examples-scripts/data/StarWars/StarWars_episode1.edges
          
        
          
            
            examples-scripts/data/StarWars/StarWars_episode2.edges
          
        
          
            
            examples-scripts/data/StarWars/StarWars_episode3.edges
          
        
          
            
            examples-scripts/data/StarWars/StarWars_episode4.edges
          
        
          
            
            examples-scripts/data/StarWars/StarWars_episode5.edges
          
        
          
            
            examples-scripts/data/StarWars/StarWars_episode6.edges
          
        
          
            
            examples-scripts/data/StarWars/StarWars_layout.txt
          
        
          
            
            examples-scripts/example_configmodel_generator.R
          
        
          
            
            examples-scripts/example_coverage.R
          
        
          
            
            examples-scripts/example_coverage_optimized.R
          
        
          
            
            examples-scripts/example_overlapping_generator.R
          
        
          
            
            examples-scripts/example_plot_edgecolored.R
          
        
          
            
            examples-scripts/example_plot_edgecolored_heatmap_6panels.R
          
        
          
            
            examples-scripts/example_plot_edgecolored_paths.R
          
        
          
            
            examples-scripts/example_plot_edgecolored_paths_coupling.R
          
        
          
            
            examples-scripts/example_transitivity_new.R
          
        
          
            
            examples-scripts/layer-layer_corr.R
          
        
          
            
            examples-scripts/multimap_example2_expanded.clu
          
        
          
            
            examples-scripts/multimap_example2_expanded.map
          
        
          
            
            examples-scripts/multimap_example2_expanded.tree
          
        
          
            
            examples-scripts/multimap_example2_infomap.edges
          
        
          
            
            examples-scripts/multimap_example_expanded.clu
          
        
          
            
            examples-scripts/multimap_example_expanded.map
          
        
          
            
            examples-scripts/multimap_example_expanded.tree
          
        
          
            
            examples-scripts/multimap_example_hp_expanded.clu
          
        
          
            
            examples-scripts/multimap_example_hp_expanded.map
          
        
          
            
            examples-scripts/multimap_example_hp_expanded.tree
          
        
          
            
            examples-scripts/multimap_example_hp_infomap.edges
          
        
          
            
            examples-scripts/multimap_example_infomap.edges
          
        
          
            
            examples-scripts/structural_reducibility.R
          
        
          
            
            examples-scripts/versatility_measures.R
          
        
          
            
            gui-old/CREDITS.md
          
        
          
            
            gui-old/README.md
          
        
          
            
            gui-old/TODO.md
          
        
          
            
            gui-old/TROUBLESHOOTING.md
          
        
          
            
            gui-old/USAGE.md
          
        
          
            
            gui-old/bin/cyggcc_s-1.dll
          
        
          
            
            gui-old/bin/cygstdc++-6.dll
          
        
          
            
            gui-old/bin/cygwin1.dll
          
        
          
            
            gui-old/bin/fanmod_linux
          
        
          
            
            gui-old/bin/fanmod_macosx
          
        
          
            
            gui-old/bin/fanmod_windows.exe
          
        
          
            
            gui-old/bin/multiplex-infomap_macosx
          
        
          
            
            gui-old/bin/multiplex-infomap_windows.exe
          
        
          
            
            gui-old/data/DanioRerio/LICENSE_dbcl-10.txt
          
        
          
            
            gui-old/data/DanioRerio/LICENSE_odbl-10.txt
          
        
          
            
            gui-old/data/DanioRerio/README.md
          
        
          
            
            gui-old/data/DanioRerio/README.pdf
          
        
          
            
            gui-old/data/DanioRerio/danioRerio_layout.txt
          
        
          
            
            gui-old/data/DanioRerio/danioRerio_list.txt
          
        
          
            
            gui-old/data/DanioRerio/edge_list_danioRerio_layer1.txt
          
        
          
            
            gui-old/data/DanioRerio/edge_list_danioRerio_layer2.txt
          
        
          
            
            gui-old/data/DanioRerio/edge_list_danioRerio_layer3.txt
          
        
          
            
            gui-old/data/DanioRerio/edge_list_danioRerio_layer4.txt
          
        
          
            
            gui-old/data/DanioRerio/edge_list_danioRerio_layer5.txt
          
        
          
            
            gui-old/data/EUAirports/EUAirports_list.txt
          
        
          
            
            gui-old/data/EUAirports/README.txt
          
        
          
            
            gui-old/data/EUAirports/airports_layout.txt
          
        
          
            
            gui-old/data/EUAirports/edge_list_airline-europe_layer1.txt
          
        
          
            
            gui-old/data/EUAirports/edge_list_airline-europe_layer2.txt
          
        
          
            
            gui-old/data/EUAirports/edge_list_airline-europe_layer21.txt
          
        
          
            
            gui-old/data/EUAirports/edge_list_airline-europe_layer4.txt
          
        
          
            
            gui-old/data/Florentine/Florentine-Families_aggregate.edges
          
        
          
            
            gui-old/data/Florentine/Florentine-Families_aggregate_config.txt
          
        
          
            
            gui-old/data/Florentine/Florentine-Families_business.edges
          
        
          
            
            gui-old/data/Florentine/Florentine-Families_layers.txt
          
        
          
            
            gui-old/data/Florentine/Florentine-Families_layout.txt
          
        
          
            
            gui-old/data/Florentine/Florentine-Families_marriage.edges
          
        
          
            
            gui-old/data/Florentine/Florentine-Families_multiplex_config.txt
          
        
          
            
            gui-old/data/Florentine/Florentine-Families_node_color_size.txt
          
        
          
            
            gui-old/data/StarWars/LICENSE.txt
          
        
          
            
            gui-old/data/StarWars/README.txt
          
        
          
            
            gui-old/data/StarWars/StarWars_config.txt
          
        
          
            
            gui-old/data/StarWars/StarWars_episode1.edges
          
        
          
            
            gui-old/data/StarWars/StarWars_episode2.edges
          
        
          
            
            gui-old/data/StarWars/StarWars_episode3.edges
          
        
          
            
            gui-old/data/StarWars/StarWars_episode4.edges
          
        
          
            
            gui-old/data/StarWars/StarWars_episode5.edges
          
        
          
            
            gui-old/data/StarWars/StarWars_episode6.edges
          
        
          
            
            gui-old/data/StarWars/StarWars_layout.txt
          
        
          
            
            gui-old/data/general_multilayer/general_multilayer.edges
          
        
          
            
            gui-old/data/general_multilayer/general_multilayer_config.txt
          
        
          
            
            gui-old/data/general_multilayer/general_multilayer_layers.txt
          
        
          
            
            gui-old/data/general_multilayer/general_multilayer_layout.txt
          
        
          
            
            gui-old/data/interdependent6/external_edge_color_size.txt
          
        
          
            
            gui-old/data/interdependent6/external_node_color_size.txt
          
        
          
            
            gui-old/data/interdependent6/interdependent6.edges
          
        
          
            
            gui-old/data/interdependent6/interdependent6_config.txt
          
        
          
            
            gui-old/data/interdependent6/interdependent6_layers.txt
          
        
          
            
            gui-old/data/interdependent6/interdependent6_layout.txt
          
        
          
            
            gui-old/data/multiplex6/multiplex6.edges
          
        
          
            
            gui-old/data/multiplex6/multiplex6_config.txt
          
        
          
            
            gui-old/data/multiplex6/multiplex6_layers.txt
          
        
          
            
            gui-old/data/multiplex6/multiplex6_layout.txt
          
        
          
            
            gui-old/export/empty
          
        
          
            
            gui-old/gallery/.DS_Store
          
        
          
            
            gui-old/gallery/gui1.png
          
        
          
            
            gui-old/gallery/guiData.png
          
        
          
            
            gui-old/gallery/monoxViz_community_example.png
          
        
          
            
            gui-old/gallery/monoxViz_community_example2.png
          
        
          
            
            gui-old/gallery/monoxViz_london_tube.png
          
        
          
            
            gui-old/gallery/monoxViz_yeast_interaction_lcc.png
          
        
          
            
            gui-old/gallery/muxViz_16Layers_Real.png
          
        
          
            
            gui-old/gallery/muxViz_16Layers_Real2.png
          
        
          
            
            gui-old/gallery/muxViz_16Layers_Real3.png
          
        
          
            
            gui-old/gallery/muxViz_airports_osm6e.png
          
        
          
            
            gui-old/gallery/muxViz_community2.png
          
        
          
            
            gui-old/gallery/muxViz_community3.png
          
        
          
            
            gui-old/gallery/muxViz_community4.png
          
        
          
            
            gui-old/gallery/muxViz_community5.png
          
        
          
            
            gui-old/gallery/muxViz_d4d_osm11.png
          
        
          
            
            gui-old/gallery/muxViz_real_europe_airports_top3_nogeo.png
          
        
          
            
            gui-old/gallery/muxViz_simple.png
          
        
          
            
            gui-old/gallery/muxViz_simple_labeling.png
          
        
          
            
            gui-old/gallery/muxViz_time4.png
          
        
          
            
            gui-old/gallery/muxViz_time6_vertical.png
          
        
          
            
            gui-old/gallery/muxviz_general_multilayer.png
          
        
          
            
            gui-old/gallery/muxviz_real_london_trains.png
          
        
          
            
            gui-old/global.R
          
        
          
            
            gui-old/history.md
          
        
          
            
            gui-old/lang/README.md
          
        
          
            
            gui-old/lang/catalan.csv
          
        
          
            
            gui-old/lang/default.csv
          
        
          
            
            gui-old/lang/dutch.csv
          
        
          
            
            gui-old/lang/english.csv
          
        
          
            
            gui-old/lang/italian.csv
          
        
          
            
            gui-old/lang/jp.xlsx
          
        
          
            
            gui-old/language.R
          
        
          
            
            gui-old/muxLib.R
          
        
          
            
            gui-old/muxVizGUI.R
          
        
          
            
            gui-old/mux_dataset.csv
          
        
          
            
            gui-old/osm_back.png
          
        
          
            
            gui-old/server.R
          
        
          
            
            gui-old/sessions/empty
          
        
          
            
            gui-old/src/Multiplex-Infomap_src.zip
          
        
          
            
            gui-old/src/fanmod_src.zip
          
        
          
            
            gui-old/theory/README.md
          
        
          
            
            gui-old/theory/illustrations/LICENSE.md
          
        
          
            
            gui-old/theory/illustrations/_cover_.png
          
        
          
            
            gui-old/theory/illustrations/aggregate_network.png
          
        
          
            
            gui-old/theory/illustrations/centrality_multilayer_networks.png
          
        
          
            
            gui-old/theory/illustrations/ecological_mux.png
          
        
          
            
            gui-old/theory/illustrations/growing_multiplex.png
          
        
          
            
            gui-old/theory/illustrations/growing_shrinking.png
          
        
          
            
            gui-old/theory/illustrations/life_multilayer.png
          
        
          
            
            gui-old/theory/illustrations/motifs_mux.png
          
        
          
            
            gui-old/theory/illustrations/multi_single_coupled_dynamics.png
          
        
          
            
            gui-old/theory/illustrations/multilayer2supra.jpg
          
        
          
            
            gui-old/theory/illustrations/multilayer_connected_components.png
          
        
          
            
            gui-old/theory/illustrations/multipaths.png
          
        
          
            
            gui-old/theory/illustrations/mux_models.png
          
        
          
            
            gui-old/theory/illustrations/mux_reducibility.png
          
        
          
            
            gui-old/theory/illustrations/muxviz_aps_layered_2x5.png
          
        
          
            
            gui-old/theory/illustrations/muxviz_game_of_thrones_viz_community_single.png
          
        
          
            
            gui-old/theory/illustrations/muxviz_game_of_thrones_viz_multipagerank.png
          
        
          
            
            gui-old/theory/illustrations/muxviz_layout.png
          
        
          
            
            gui-old/theory/illustrations/muxviz_star_wars.png
          
        
          
            
            gui-old/theory/illustrations/network_of_layers.png
          
        
          
            
            gui-old/theory/illustrations/random_walk.png
          
        
          
            
            gui-old/theory/illustrations/rank2_flattening.png
          
        
          
            
            gui-old/theory/illustrations/rank4_flattening.png
          
        
          
            
            gui-old/theory/illustrations/shrinking_multiplex.png
          
        
          
            
            gui-old/theory/illustrations/social_mux.png
          
        
          
            
            gui-old/theory/illustrations/state_nodes.png
          
        
          
            
            gui-old/theory/illustrations/tensors.png
          
        
          
            
            gui-old/theory/illustrations/transport_multimodal.png
          
        
          
            
            gui-old/theory/illustrations/triadic_multiplex.png
          
        
          
            
            gui-old/tmp/empty
          
        
          
            
            gui-old/ui.R
          
        
          
            
            gui-old/version.R
          
        
          
            
            gui-old/www/colorbrewer.html
          
        
          
            
            gui-old/www/example_config.txt
          
        
          
            
            gui-old/www/example_layer.txt
          
        
          
            
            gui-old/www/example_layout.txt
          
        
          
            
            gui-old/www/example_timeline.txt
          
        
          
            
            gui-old/www/genlouvain_license.txt
          
        
          
            
            gui-old/www/img/backmaps.png
          
        
          
            
            gui-old/www/img/chord.png
          
        
          
            
            gui-old/www/img/colorpalettes.png
          
        
          
            
            gui-old/www/img/funding.png
          
        
          
            
            gui-old/www/img/home.png
          
        
          
            
            gui-old/www/img/layout_type.png
          
        
          
            
            gui-old/www/img/linetypes.png
          
        
          
            
            gui-old/www/img/logo.jpg
          
        
          
            
            gui-old/www/img/logo_small.jpg
          
        
          
            
            gui-old/www/img/motifs/empty
          
        
          
            
            gui-old/www/img/network_type.png
          
        
          
            
            gui-old/www/img/pointtypes.png
          
        
          
            
            gui-old/www/img/sankey.png
          
        
          
            
            gui-old/www/muxnet_license.txt
          
        
          
            
            gui-old/www/muxviz.js
          
        
          
            
            gui-old/www/styles.css
          
        
          
            
            index.Rmd
          
        
          
            
            index.html
          
        
          
            
            index.md
          
        
          
            
            man/BuildDensityMatrixBGS.Rd
          
        
          
            
            man/BuildExtendedEdgelistFromSupraAdjacencyMatrix.Rd
          
        
          
            
            man/BuildLayersTensor.Rd
          
        
          
            
            man/BuildSupraAdjacencyMatrixFromEdgeColoredMatrices.Rd
          
        
          
            
            man/BuildSupraAdjacencyMatrixFromExtendedEdgelist.Rd
          
        
          
            
            man/BuildSupraTransitionMatrixFromSupraAdjacencyMatrix.Rd
          
        
          
            
            man/BuildTransitionMatrixFromEdgeColoredMatrices.Rd
          
        
          
            
            man/BuildTransitionMatrixFromSingleLayer.Rd
          
        
          
            
            man/CanonicalVector.Rd
          
        
          
            
            man/GetAggregateMatrix.Rd
          
        
          
            
            man/GetAggregateMatrixFromNetworkList.Rd
          
        
          
            
            man/GetAggregateMatrixFromSupraAdjacencyMatrix.Rd
          
        
          
            
            man/GetAggregateNetworkFromNetworkList.Rd
          
        
          
            
            man/GetAggregateNetworkFromSupraAdjacencyMatrix.Rd
          
        
          
            
            man/GetAverageGlobalClustering.Rd
          
        
          
            
            man/GetAverageGlobalNodeOverlappingMatrix.Rd
          
        
          
            
            man/GetAverageGlobalOverlapping.Rd
          
        
          
            
            man/GetAverageGlobalOverlappingMatrix.Rd
          
        
          
            
            man/GetConfigurationModelTypeIFromNetworkList.Rd
          
        
          
            
            man/GetConfigurationModelTypeIIFromNetworkList.Rd
          
        
          
            
            man/GetConnectedComponents.Rd
          
        
          
            
            man/GetCoverageEvolutionEdgeColored.Rd
          
        
          
            
            man/GetCoverageEvolutionMultilayer.Rd
          
        
          
            
            man/GetCoverageEvolutionSingleLayer.Rd
          
        
          
            
            man/GetEigenvaluesOfDensityMatrix.Rd
          
        
          
            
            man/GetEigenvaluesOfDensityMatrixFromAdjacencyMatrix.Rd
          
        
          
            
            man/GetGiantConnectedComponent.Rd
          
        
          
            
            man/GetGiantIntersectionComponent.Rd
          
        
          
            
            man/GetGiantIntersectionComponentFromNetworkList.Rd
          
        
          
            
            man/GetGiantViableComponent.Rd
          
        
          
            
            man/GetGiantViableComponentFromNetworkList.Rd
          
        
          
            
            man/GetGlobalNumberTriangles.Rd
          
        
          
            
            man/GetInterAssortativityTensor.Rd
          
        
          
            
            man/GetJensenShannonDivergence.Rd
          
        
          
            
            man/GetLaplacianMatrix.Rd
          
        
          
            
            man/GetLargestEigenv.Rd
          
        
          
            
            man/GetLocalClustering.Rd
          
        
          
            
            man/GetMonoplexTriads.Rd
          
        
          
            
            man/GetMultiAuthCentrality.Rd
          
        
          
            
            man/GetMultiClosenessCentrality.Rd
          
        
          
            
            man/GetMultiDegree.Rd
          
        
          
            
            man/GetMultiDegreeSum.Rd
          
        
          
            
            man/GetMultiEigenvectorCentrality.Rd
          
        
          
            
            man/GetMultiHubCentrality.Rd
          
        
          
            
            man/GetMultiInDegree.Rd
          
        
          
            
            man/GetMultiInDegreeSum.Rd
          
        
          
            
            man/GetMultiInStrength.Rd
          
        
          
            
            man/GetMultiInStrengthSum.Rd
          
        
          
            
            man/GetMultiKCoreCentrality.Rd
          
        
          
            
            man/GetMultiKatzCentrality.Rd
          
        
          
            
            man/GetMultiOutDegree.Rd
          
        
          
            
            man/GetMultiOutDegreeSum.Rd
          
        
          
            
            man/GetMultiOutStrength.Rd
          
        
          
            
            man/GetMultiOutStrengthSum.Rd
          
        
          
            
            man/GetMultiPageRankCentrality.Rd
          
        
          
            
            man/GetMultiPathStatistics.Rd
          
        
          
            
            man/GetMultiRWCentrality.Rd
          
        
          
            
            man/GetMultiStrength.Rd
          
        
          
            
            man/GetMultiStrengthSum.Rd
          
        
          
            
            man/GetMultilayerCommunities_Infomap.Rd
          
        
          
            
            man/GetMultilayerMotifs.Rd
          
        
          
            
            man/GetMultilayerMotifsFromNetworkList.Rd
          
        
          
            
            man/GetMultilayerReducibility.Rd
          
        
          
            
            man/GetMultiplexCommunities_Infomap.Rd
          
        
          
            
            man/GetMultiplexTriads.Rd
          
        
          
            
            man/GetMultiplexTriadsFromNetworkList.Rd
          
        
          
            
            man/GetMultiplexityCentrality.Rd
          
        
          
            
            man/GetNormalizedLaplacianMatrix.Rd
          
        
          
            
            man/GetRenyiEntropyFromAdjacencyMatrix.Rd
          
        
          
            
            man/GetRewiredLayerWithOverlappingEdges.Rd
          
        
          
            
            man/GetSPSimilarityMatrix.Rd
          
        
          
            
            man/GetSampleMultiplex.Rd
          
        
          
            
            man/MultiShortestPathFromNode.Rd
          
        
          
            
            man/ShortestPathFromNode.Rd
          
        
          
            
            man/SolveEigenvalueProblem.Rd
          
        
          
            
            man/SupraAdjacencyToBlockTensor.Rd
          
        
          
            
            man/SupraAdjacencyToNetworkList.Rd
          
        
          
            
            man/SupraAdjacencyToNodesTensor.Rd
          
        
          
            
            man/binarizeMatrix.Rd
          
        
          
            
            man/blkdiag.Rd
          
        
          
            
            man/buildMultilayerNetworkFromMuxvizFiles.Rd
          
        
          
            
            man/diagR.Rd
          
        
          
            
            man/figures/backmaps.png
          
        
          
            
            man/figures/chord.png
          
        
          
            
            man/figures/colorpalettes.png
          
        
          
            
            man/figures/funding.png
          
        
          
            
            man/figures/gui1.png
          
        
          
            
            man/figures/guiData.png
          
        
          
            
            man/figures/home.png
          
        
          
            
            man/figures/layout_type.png
          
        
          
            
            man/figures/linetypes.png
          
        
          
            
            man/figures/logo.jpg
          
        
          
            
            man/figures/logo.png
          
        
          
            
            man/figures/logo_small.jpg
          
        
          
            
            man/figures/multi_er.png
          
        
          
            
            man/figures/multi_er_fanmod.png
          
        
          
            
            man/figures/multi_sbm.png
          
        
          
            
            man/figures/multi_sbm_infomap2.png
          
        
          
            
            man/figures/multi_sbm_infomap_hp.png
          
        
          
            
            man/figures/multi_sbm_infomap_hp_table.png
          
        
          
            
            man/figures/multi_sbm_infomap_table.png
          
        
          
            
            man/figures/mux_BA_3layers.png
          
        
          
            
            man/figures/network_type.png
          
        
          
            
            man/figures/plot-1.png
          
        
          
            
            man/figures/pointtypes.png
          
        
          
            
            man/figures/sankey.png
          
        
          
            
            man/getVersatilityProfile.Rd
          
        
          
            
            man/layoutMultiplex.Rd
          
        
          
            
            man/modR.Rd
          
        
          
            
            man/multiplot.Rd
          
        
          
            
            man/plot_multimodules.Rd
          
        
          
            
            man/plot_multimotif.Rd
          
        
          
            
            man/plot_multiplex.Rd
          
        
          
            
            man/plot_multiplex3D.Rd
          
        
          
            
            man/reshapeR.Rd
          
        
          
            
            man/speye.Rd
          
        
          
            
            man/sumR.Rd
          
        
          
            
            man/traceR.Rd
          
        
          
            
            muxViz.Rproj
          
        
          
            
            pkgdown/favicon/apple-touch-icon-120x120.png
          
        
          
            
            pkgdown/favicon/apple-touch-icon-152x152.png
          
        
          
            
            pkgdown/favicon/apple-touch-icon-180x180.png
          
        
          
            
            pkgdown/favicon/apple-touch-icon-60x60.png
          
        
          
            
            pkgdown/favicon/apple-touch-icon-76x76.png
          
        
          
            
            pkgdown/favicon/apple-touch-icon.png
          
        
          
            
            pkgdown/favicon/favicon-16x16.png
          
        
          
            
            pkgdown/favicon/favicon-32x32.png
          
        
          
            
            pkgdown/favicon/favicon.ico
          
        
          
            
            src-exe/fanmod_linux
          
        
          
            
            src-exe/fanmod_macosx
          
        
          
            
            src-exe/fanmod_src.zip
          
        
          
            
            src-exe/fanmod_windows.exe
          
        
          
            
            src-exe/infomap-0.x/.dockerignore
          
        
          
            
            src-exe/infomap-0.x/.github/ISSUE_TEMPLATE/bug_report.md
          
        
          
            
            src-exe/infomap-0.x/.gitignore
          
        
          
            
            src-exe/infomap-0.x/.hgignore
          
        
          
            
            src-exe/infomap-0.x/CHANGES.txt
          
        
          
            
            src-exe/infomap-0.x/Dockerfile
          
        
          
            
            src-exe/infomap-0.x/LICENSE_AGPLv3.txt
          
        
          
            
            src-exe/infomap-0.x/Makefile
          
        
          
            
            src-exe/infomap-0.x/README.md
          
        
          
            
            src-exe/infomap-0.x/_config.yml
          
        
          
            
            src-exe/infomap-0.x/docker-compose.yaml
          
        
          
            
            src-exe/infomap-0.x/docs/_config.yml
          
        
          
            
            src-exe/infomap-0.x/docs/index.md
          
        
          
            
            src-exe/infomap-0.x/examples/R/Makefile
          
        
          
            
            src-exe/infomap-0.x/examples/R/example-bipartite.R
          
        
          
            
            src-exe/infomap-0.x/examples/R/example-igraph.R
          
        
          
            
            src-exe/infomap-0.x/examples/R/example-minimal.R
          
        
          
            
            src-exe/infomap-0.x/examples/R/load-infomap.R
          
        
          
            
            src-exe/infomap-0.x/examples/c/Makefile
          
        
          
            
            src-exe/infomap-0.x/examples/c/example.c
          
        
          
            
            src-exe/infomap-0.x/examples/cpp/Infomap-igraph-interface-library/Makefile
          
        
          
            
            src-exe/infomap-0.x/examples/cpp/Infomap-igraph-interface-library/src/Infomap-igraph-interface.cpp
          
        
          
            
            src-exe/infomap-0.x/examples/cpp/Infomap-igraph-interface-library/src/Infomap-igraph-interface.h
          
        
          
            
            src-exe/infomap-0.x/examples/cpp/igraph/Makefile
          
        
          
            
            src-exe/infomap-0.x/examples/cpp/igraph/example-igraph.cpp
          
        
          
            
            src-exe/infomap-0.x/examples/cpp/minimal/Makefile
          
        
          
            
            src-exe/infomap-0.x/examples/cpp/minimal/example.cpp
          
        
          
            
            src-exe/infomap-0.x/examples/cpp/minimal/mem-example.cpp
          
        
          
            
            src-exe/infomap-0.x/examples/cpp/minimal/multi-example.cpp
          
        
          
            
            src-exe/infomap-0.x/examples/js/Infomap-worker.html
          
        
          
            
            src-exe/infomap-0.x/examples/js/Makefile
          
        
          
            
            src-exe/infomap-0.x/examples/python/Makefile
          
        
          
            
            src-exe/infomap-0.x/examples/python/example-bipartite.py
          
        
          
            
            src-exe/infomap-0.x/examples/python/example-file-io.py
          
        
          
            
            src-exe/infomap-0.x/examples/python/example-multiplex.py
          
        
          
            
            src-exe/infomap-0.x/examples/python/example-networkx.py
          
        
          
            
            src-exe/infomap-0.x/examples/python/example-simple.py
          
        
          
            
            src-exe/infomap-0.x/examples/python/example-trigram-expanded.py
          
        
          
            
            src-exe/infomap-0.x/examples/python/example-trigram.py
          
        
          
            
            src-exe/infomap-0.x/examples/python/infomap-examples.ipynb
          
        
          
            
            src-exe/infomap-0.x/interfaces/js/pre-worker-module.js
          
        
          
            
            src-exe/infomap-0.x/interfaces/python/setup.py
          
        
          
            
            src-exe/infomap-0.x/interfaces/swig/Config.i
          
        
          
            
            src-exe/infomap-0.x/interfaces/swig/Date.i
          
        
          
            
            src-exe/infomap-0.x/interfaces/swig/HierarchicalNetwork.i
          
        
          
            
            src-exe/infomap-0.x/interfaces/swig/Infomap.i
          
        
          
            
            src-exe/infomap-0.x/interfaces/swig/MemNetwork.i
          
        
          
            
            src-exe/infomap-0.x/interfaces/swig/MultiplexNetwork.i
          
        
          
            
            src-exe/infomap-0.x/interfaces/swig/Network.i
          
        
          
            
            src-exe/infomap-0.x/ninetriangles.net
          
        
          
            
            src-exe/infomap-0.x/src/CApi.cpp
          
        
          
            
            src-exe/infomap-0.x/src/Infomap.cpp
          
        
          
            
            src-exe/infomap-0.x/src/Infomap.h
          
        
          
            
            src-exe/infomap-0.x/src/Informatter.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/Edge.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/FlowNetwork.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/FlowNetwork.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/InfomapBase.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/InfomapBase.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/InfomapContext.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/InfomapContext.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/InfomapGreedy.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/InfomapGreedyCommon.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/InfomapGreedySpecialized.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/InfomapGreedyTypeSpecialized.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/MemFlowNetwork.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/MemFlowNetwork.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/MemNetwork.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/MemNetwork.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/MemoryNetworkAdapter.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/MemoryNetworkAdapter.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/MultiplexNetwork.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/MultiplexNetwork.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/Network.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/Network.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/NetworkAdapter.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/NetworkAdapter.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/Node.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/Node.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/NodeFactory.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/TreeData.cpp
          
        
          
            
            src-exe/infomap-0.x/src/infomap/TreeData.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/flowData.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/flowData_traits.h
          
        
          
            
            src-exe/infomap-0.x/src/infomap/treeIterators.h
          
        
          
            
            src-exe/infomap-0.x/src/io/BipartiteClusterReader.cpp
          
        
          
            
            src-exe/infomap-0.x/src/io/BipartiteClusterReader.h
          
        
          
            
            src-exe/infomap-0.x/src/io/ClusterReader.cpp
          
        
          
            
            src-exe/infomap-0.x/src/io/ClusterReader.h
          
        
          
            
            src-exe/infomap-0.x/src/io/Config.h
          
        
          
            
            src-exe/infomap-0.x/src/io/HierarchicalNetwork.cpp
          
        
          
            
            src-exe/infomap-0.x/src/io/HierarchicalNetwork.h
          
        
          
            
            src-exe/infomap-0.x/src/io/ProgramInterface.cpp
          
        
          
            
            src-exe/infomap-0.x/src/io/ProgramInterface.h
          
        
          
            
            src-exe/infomap-0.x/src/io/SafeFile.h
          
        
          
            
            src-exe/infomap-0.x/src/io/TreeDataWriter.cpp
          
        
          
            
            src-exe/infomap-0.x/src/io/TreeDataWriter.h
          
        
          
            
            src-exe/infomap-0.x/src/io/convert.h
          
        
          
            
            src-exe/infomap-0.x/src/io/version.cpp
          
        
          
            
            src-exe/infomap-0.x/src/io/version.h
          
        
          
            
            src-exe/infomap-0.x/src/utils/Date.h
          
        
          
            
            src-exe/infomap-0.x/src/utils/FileURI.cpp
          
        
          
            
            src-exe/infomap-0.x/src/utils/FileURI.h
          
        
          
            
            src-exe/infomap-0.x/src/utils/Logger.cpp
          
        
          
            
            src-exe/infomap-0.x/src/utils/Logger.h
          
        
          
            
            src-exe/infomap-0.x/src/utils/MersenneTwister.h
          
        
          
            
            src-exe/infomap-0.x/src/utils/Stopwatch.h
          
        
          
            
            src-exe/infomap-0.x/src/utils/gap_iterator.h
          
        
          
            
            src-exe/infomap-0.x/src/utils/infomath.h
          
        
          
            
            src-exe/infomap-0.x/src/utils/types.h
          
        
          
            
            src-exe/multiplex-infomap_macosx
          
        
          
            
            src-exe/multiplex-infomap_windows.exe
          
        
          
            
            vignettes/.gitignore
          
        
          
            
            vignettes/ml_community.Rmd
          
        
          
            
            vignettes/ml_motifs.Rmd
          
        
          
            
            vignettes/multimap_example2_expanded.clu
          
        
          
            
            vignettes/multimap_example2_expanded.map
          
        
          
            
            vignettes/multimap_example2_expanded.tree
          
        
          
            
            vignettes/multimap_example2_infomap.edges
          
        
          
            
            vignettes/multimap_example_expanded.clu
          
        
          
            
            vignettes/multimap_example_expanded.map
          
        
          
            
            vignettes/multimap_example_expanded.tree
          
        
          
            
            vignettes/multimap_example_hp_expanded.clu
          
        
          
            
            vignettes/multimap_example_hp_expanded.map
          
        
          
            
            vignettes/multimap_example_hp_expanded.tree
          
        
          
            
            vignettes/multimap_example_hp_infomap.edges
          
        
          
            
            vignettes/multimap_example_infomap.edges
          
        
          
            
            vignettes/setup_infomap_fanmod.Rmd