Package index
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splot.net_bootstrap()splot.tna_communities()splot.cograph_communities()splot.net_mlvar()splot.netobject()splot.boot_glasso()splot.wtna_mixed()splot.net_permutation()splot() - Plot Nestimate Bootstrap Results
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sn_save() - Save Network Visualization
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soplot()sn_render() - Plot Cograph Network
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sn_ggplot() - Convert Network to ggplot2
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sn_save_ggplot() - Save as ggplot2
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from_tna() - Convert a tna object to cograph parameters
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plot_tna()tplot() - TNA-Style Network Plot (qgraph Compatible)
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plot_htna()htna() - Plot Heterogeneous TNA Network (Multi-Group Layout)
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plot_mtna()mtna() - Multi-Cluster TNA Network Plot
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plot_mlna()mlna() - Multilevel Network Visualization
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cograph() - Create a Network Visualization
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as_cograph()to_cograph() - Convert to Cograph Network
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n_nodes() - Get Number of Nodes
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n_edges() - Get Number of Edges
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get_edges() - Get Edges from Cograph Network
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get_labels() - Get Labels from Cograph Network
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get_nodes() - Get Nodes from Cograph Network
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set_edges() - Set Edges in Cograph Network
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set_nodes() - Set Nodes in Cograph Network
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sn_edges() - Set Edge Aesthetics
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sn_ggplot() - Convert Network to ggplot2
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sn_nodes() - Set Node Aesthetics
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sn_save() - Save Network Visualization
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aes-nodes - Node Aesthetics
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aes-edges - Edge Aesthetics
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output-save - Output and Saving
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from_qgraph() - Convert a qgraph object to cograph parameters
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list_palettes() - List Available Color Palettes
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sn_palette() - Apply Color Palette to Network
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palette_blues() - Blues Palette
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palette_colorblind() - Colorblind-friendly Palette
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palette_diverging() - Diverging Palette
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palette_pastel() - Pastel Palette
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palette_rainbow() - Rainbow Palette
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palette_reds() - Reds Palette
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palette_viridis() - Viridis Palette
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palettes - Color Palettes
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get_shape() - Get a Registered Shape
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list_shapes() - List Available Shapes
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list_svg_shapes() - List Registered SVG Shapes
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register_shape() - Register a Custom Shape
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register_svg_shape() - Register Custom SVG Shape
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unregister_svg_shape() - Unregister SVG Shape
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get_theme() - Get a Registered Theme
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list_themes() - List Available Themes
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sn_theme() - Apply Theme to Network
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register_theme() - Register a Custom Theme
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theme_cograph_classic() - Classic Theme
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theme_cograph_colorblind() - Colorblind-friendly Theme
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theme_cograph_dark() - Dark Theme
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theme_cograph_gray() - Grayscale Theme
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theme_cograph_minimal() - Minimal Theme
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theme_cograph_nature() - Nature Theme
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theme_cograph_viridis() - Viridis Theme
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get_layout() - Get a Registered Layout
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set_layout() - Set Layout in Cograph Network
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sn_layout() - Apply Layout to Network
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layout-circle - Circular Layout
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layout-groups - Group-based Layout
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layout-oval - Oval/Ellipse Layout
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layout-spring - Fruchterman-Reingold Spring Layout
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layout_circle() - Circular Layout
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layout_groups() - Group-based Layout
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layout_oval() - Oval Layout
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layout_spring() - Fruchterman-Reingold Spring Layout
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list_layouts() - List Available Layouts
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register_layout() - Register a Custom Layout
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motif_census()print(<cograph_motifs>) - Network Motif Analysis
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extract_motifs()print(<cograph_motif_analysis>) - Extract Motifs from Network Data
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extract_triads() - Extract Triads with Node Labels
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triad_census() - Triad Census
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centrality() - Calculate Network Centrality Measures
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centrality_alpha() - Alpha (Katz) Centrality
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centrality_authority()centrality_hub() - HITS Authority and Hub Scores
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centrality_average_distance() - Average Distance Centrality
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centrality_barycenter() - Barycenter Centrality
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centrality_betweenness() - Betweenness Centrality
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centrality_bottleneck() - Bottleneck Centrality
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centrality_bridging() - Bridging Centrality
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centrality_brokerage_coordinator() - Gould-Fernandez Brokerage — Coordinator Role
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centrality_brokerage_gatekeeper() - Gould-Fernandez Brokerage — Gatekeeper Role
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centrality_brokerage_itinerant() - Gould-Fernandez Brokerage — Itinerant (Consultant) Role
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centrality_brokerage_liaison() - Gould-Fernandez Brokerage — Liaison Role
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centrality_brokerage_representative() - Gould-Fernandez Brokerage — Representative Role
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centrality_centroid() - Centroid Value
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centrality_closeness()centrality_incloseness()centrality_outcloseness() - Closeness Centrality
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centrality_closeness_vitality() - Closeness Vitality
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centrality_clusterrank() - ClusterRank Centrality
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centrality_communicability() - Communicability Centrality
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centrality_communicability_betweenness() - Communicability Betweenness Centrality
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centrality_constraint() - Burt's Constraint
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centrality_coreness() - K-Core Decomposition (Coreness)
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centrality_cross_clique() - Cross-Clique Connectivity
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centrality_current_flow_betweenness() - Current Flow Betweenness Centrality
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centrality_current_flow_closeness() - Current Flow Closeness Centrality
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centrality_dangalchev() - Dangalchev Closeness Centrality
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centrality_decay() - Decay Centrality
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centrality_degree()centrality_indegree()centrality_outdegree() - Degree Centrality
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centrality_diffusion() - Diffusion Centrality
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centrality_diversity() - Diversity Centrality
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centrality_dmnc() - Density of Maximum Neighborhood Component (DMNC)
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centrality_eccentricity()centrality_ineccentricity()centrality_outeccentricity() - Eccentricity
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centrality_effective_size() - Effective Size (Burt's)
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centrality_eigenvector() - Eigenvector Centrality
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centrality_entropy() - Entropy Centrality
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centrality_expected() - Expected Centrality
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centrality_expected_influence_1() - Expected Influence (one-step)
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centrality_expected_influence_2() - Expected Influence (two-step)
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centrality_flow_betweenness() - Flow Betweenness Centrality
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centrality_gateway() - Gateway Coefficient
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centrality_generalized_closeness() - Generalized Closeness Centrality
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centrality_gilschmidt() - Gil-Schmidt Power Index
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centrality_harary() - Harary Centrality
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centrality_harmonic()centrality_inharmonic()centrality_outharmonic() - Harmonic Centrality
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centrality_hubbell() - Hubbell Centrality
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centrality_information() - Information Centrality (Stephenson-Zelen)
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centrality_integration() - Integration Centrality
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centrality_katz() - Katz Centrality
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centrality_kreach() - Geodesic K-Path Centrality
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centrality_lac() - Local Average Connectivity (LAC)
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centrality_laplacian() - Laplacian Centrality
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centrality_leaderrank() - LeaderRank Centrality
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centrality_leverage() - Leverage Centrality
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centrality_lin() - Lin Centrality
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centrality_load() - Load Centrality
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centrality_lobby() - Lobby Index (H-Index of Neighborhood)
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centrality_local_bridging() - Local Bridging Centrality
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centrality_markov() - Markov Centrality
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centrality_mnc() - Maximum Neighborhood Component (MNC)
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centrality_pagerank() - PageRank Centrality
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centrality_pairwisedis() - Pairwise Disconnectivity (Potapov et al. 2008)
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centrality_participation() - Participation Coefficient
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centrality_percolation() - Percolation Centrality
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centrality_power() - Bonacich Power Centrality
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centrality_prestige_domain() - Domain Prestige
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centrality_prestige_domain_proximity() - Domain Proximity Prestige
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centrality_radiality() - Radiality Centrality
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centrality_random_walk() - Random Walk Centrality
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centrality_reaching_local() - Local Reaching Centrality (Mones, Vicsek & Vicsek 2012)
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centrality_residual_closeness() - Residual Closeness Centrality
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centrality_salsa() - SALSA Authority Centrality
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centrality_semilocal() - Semi-Local Centrality
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centrality_strength()centrality_instrength()centrality_outstrength() - Strength Centrality (Weighted Degree)
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centrality_stress() - Stress Centrality
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centrality_subgraph() - Subgraph Centrality
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centrality_topological_coefficient() - Topological Coefficient
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centrality_transitivity() - Local Transitivity (Clustering Coefficient)
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centrality_voterank() - VoteRank Centrality
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centrality_wiener() - Wiener Index Centrality
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centrality_within_module_z() - Within-Module Degree Z-Score
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community_consensus()com_consensus() - Consensus Community Detection
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community_edge_betweenness()com_eb() - Edge Betweenness Community Detection
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community_fast_greedy()com_fg() - Fast Greedy Community Detection
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community_fluid()com_fl() - Fluid Communities Detection
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community_infomap()com_im() - Infomap Community Detection
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community_label_propagation()com_lp() - Label Propagation Community Detection
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community_leading_eigenvector()com_le() - Leading Eigenvector Community Detection
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community_leiden()com_ld() - Leiden Community Detection
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community_louvain()com_lv() - Louvain Community Detection
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community_optimal()com_op() - Optimal Community Detection
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community_sizes() - Get Community Sizes
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community_spinglass()com_sg() - Spinglass Community Detection
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community_walktrap()com_wt() - Walktrap Community Detection
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select_bridges() - Select Bridge Edges
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select_component() - Select Connected Component
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select_edges() - Select Edges with Lazy Computation
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select_edges_between() - Select Edges Between Node Sets
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select_edges_involving() - Select Edges Involving Nodes
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select_neighbors() - Select Node Neighbors (Ego Network)
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select_nodes() - Select Nodes with Lazy Centrality Computation
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select_top() - Select Top N Nodes by Centrality
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select_top_edges() - Select Top N Edges
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filter_edges()subset_edges() - Filter Edges by Metadata
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filter_nodes()subset_nodes() - Filter Nodes by Metadata or Centrality
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network_bridges() - Bridge Edges
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network_clique_size() - Largest Clique Size
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network_cut_vertices() - Cut Vertices (Articulation Points)
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network_girth() - Network Girth (Shortest Cycle Length)
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network_global_efficiency() - Global Efficiency
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network_local_efficiency() - Local Efficiency
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network_radius() - Network Radius
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network_rich_club() - Rich Club Coefficient
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network_small_world() - Small-World Coefficient (Sigma)
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network_summary() - Network-Level Summary Statistics
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network_vertex_connectivity() - Network Vertex Connectivity
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as_cograph()to_cograph() - Convert to Cograph Network
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to_data_frame()to_df() - Export Network as Edge List Data Frame
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to_igraph() - Convert Network to igraph Object
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to_matrix() - Convert Network to Adjacency Matrix
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to_network() - Convert Network to statnet network Object
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plot_alluvial() - Plot Alluvial Diagram
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plot_centrality() - Plot Centrality
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plot_centrality_compare() - Plot Centrality Comparison (Pyramid)
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plot_centrality_distribution() - Plot Centrality Distribution
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plot_centrality_heatmap() - Plot Centrality Heatmap
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plot_chord() - Chord Diagram
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plot_compare() - Plot Network Difference
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plot_comparison_heatmap() - Plot Comparison Heatmap
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plot_degree_correlation() - Plot Degree-Degree Correlation
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plot_edge_diff_forest() - Forest Plot for Bootstrap Edge Differences
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plot_edge_weights() - Plot Edge Weight Distribution
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splot.group_tna_permutation()plot_group_permutation() - Plot Group Permutation Test Results
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plot_heatmap() - Plot Network as Heatmap
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plot_htna()htna() - Plot Heterogeneous TNA Network (Multi-Group Layout)
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plot_mcml() - Plot Multi-Cluster Multi-Layer Network
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plot_mixed_network() - Plot Mixed Network
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plot_ml_heatmap() - Multilayer Network Heatmap
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plot_mlna()mlna() - Multilevel Network Visualization
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plot_mtna()mtna() - Multi-Cluster TNA Network Plot
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plot_net_bootstrap_group()plot(<net_bootstrap_group>) - Plot a Group Bootstrap Result
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plot_net_stability()plot(<net_stability>) - Plot Centrality Stability Results
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plot_netobject_group()plot(<netobject_group>) - Plot a Group of Nestimate netobjects
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plot_netobject_ml()plot(<netobject_ml>) - Plot a Multilevel Nestimate netobject
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plot_network_evolution() - Plot Network Evolution (Small Multiples)
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splot.tna_permutation()plot_permutation() - Plot Permutation Test Results
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plot_robustness() - Plot Network Robustness
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plot_simplicial() - Simplicial Complex Visualization
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plot_temporal() - Temporal Network Prism (3D Glass Box)
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plot_tna()tplot() - TNA-Style Network Plot (qgraph Compatible)
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plot_trajectories() - Plot Individual Trajectories
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plot_transitions() - Plot Transitions Between States
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CographLayout - CographLayout R6 Class
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CographNetwork - CographNetwork R6 Class
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CographTheme - CographTheme R6 Class
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aggregate_layers()lagg() - Aggregate Layers
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aggregate_weights()wagg() - Aggregate Edge Weights
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cluster_quality()cqual() - Cluster Quality Metrics
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cluster_summary()csum() - Cluster Summary Statistics
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cograph-main - Main Entry Point
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cograph-package - cograph: Modern Network Visualization for R
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color_communities() - Color Nodes by Community
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communities() - Community Detection
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compare_communities() - Compare Community Structures
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degree_distribution() - Degree Distribution Visualization
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detect_communities() - Detect Communities in a Network
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edge_centrality()edge_betweenness() - Calculate Edge Centrality Measures
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get_edge_list() - Extract Raw Edge List from TNA Model
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get_groups() - Get Node Groups from Cograph Network
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get_shape() - Get a Registered Shape
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ggplot_robustness() - Compare Network Robustness (ggplot2)
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is_directed() - Check if Network is Directed
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is_tna_network() - Check if Network is TNA-based
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membership() - Get Community Membership
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mcml()deprecated - mcml - Deprecated alias for cluster_summary
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n_communities() - Get Number of Communities
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nodes() - Get Nodes from Cograph Network (Deprecated)
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robustness() - Network Robustness Analysis
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robustness_auc() - Calculate Area Under Robustness Curve (AUC)
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robustness_summary() - Summary of Robustness Analysis
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set_groups() - Set Node Groups
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supra_adjacency()supra() - Supra-Adjacency Matrix
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supra_interlayer()extract_interlayer() - Extract Inter-Layer Block
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supra_layer()extract_layer() - Extract Layer from Supra-Adjacency Matrix
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verify_with_igraph()verify_igraph() - Verify Against igraph
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layer_degree_correlation()ldegcor() - Degree Correlation Between Layers
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layer_similarity()lsim() - Layer Similarity
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layer_similarity_matrix()lsim_matrix() - Pairwise Layer Similarities
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themes-builtin - Built-in Themes
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motifs()print(<cograph_motif_result>)plot(<cograph_motif_result>) - Network Motif Analysis
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print(<cograph_communities>) - Print Community Structure
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print(<cograph_degree_fit>) - Print method for cograph_degree_fit
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print(<cograph_network>) - Print cograph_network Object
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plot(<cograph_cluster_significance>) - Plot Cluster Significance
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plot(<cograph_communities>) - Plot Community Structure
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plot(<cograph_core_periphery>) - Plot Core-Periphery Structure
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plot(<cograph_degree_fit>) - Plot method for cograph_degree_fit
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plot(<cograph_motif_analysis>) - Plot Motif Analysis Results
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plot(<cograph_motifs>) - Plot Network Motifs
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plot(<cograph_network>) - Plot cograph_network Object
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plot(<cograph_rich_club>) - Plot Rich Club Results
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plot(<cograph_vulnerability>) - Plot Node Vulnerability
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plot(<tna_disparity>) - Plot Disparity Filter Result
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plot(<tna_bootstrap>)splot.tna_bootstrap() - Plot Bootstrap Results
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summary(<cograph_network>) - Summary of cograph_network Object
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splot.net_bootstrap()splot.tna_communities()splot.cograph_communities()splot.net_mlvar()splot.netobject()splot.boot_glasso()splot.wtna_mixed()splot.net_permutation()splot() - Plot Nestimate Bootstrap Results
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splot.tna_disparity() - Plot Disparity Results with splot
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abbrev_label()label_abbrev() - Abbreviate Labels
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as_mcml() - Convert to mcml
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as_tna() - Convert cluster_summary to tna Objects
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assortativity() - Degree Assortativity Coefficient
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assortativity_attribute()homophily() - Attribute Assortativity (Homophily)
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build_mcml() - Build MCML from Raw Transition Data
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centralization() - Centralization index
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cluster_significance()csig() - Test Significance of Community Structure
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cograph() - Create a Network Visualization
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core_periphery() - Detect Core-Periphery Structure
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disparity_filter() - Disparity Filter
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dispersion() - Dispersion (Backstrom-Kleinberg 2014)
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edge_reciprocity() - Edge Reciprocity
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estrada_index() - Estrada Index
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fit_degree_distribution() - Fit Statistical Distributions to Degree Sequence
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from_qgraph() - Convert a qgraph object to cograph parameters
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from_tna() - Convert a tna object to cograph parameters
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get_data() - Get Original Data from Cograph Network
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get_edges() - Get Edges from Cograph Network
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get_labels() - Get Labels from Cograph Network
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get_layout() - Get a Registered Layout
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get_meta() - Get Metadata from Cograph Network
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get_nodes() - Get Nodes from Cograph Network
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get_source() - Get Source Type from Cograph Network
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get_theme() - Get a Registered Theme
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group_centrality() - Group Centrality (Everett-Borgatti 1999)
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codingcoding_detailedai_codingai_detailedhuman_aihuman_ai_detailed - Human-AI Interaction Coding Sequences
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is_bipartite() - Check if a Matrix Could Be Bipartite
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k_shortest_paths() - Find K Shortest Loopless Paths (Yen's Algorithm)
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layout_circle() - Circular Layout
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layout_groups() - Group-based Layout
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layout_oval() - Oval Layout
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layout_spring() - Fruchterman-Reingold Spring Layout
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list_layouts() - List Available Layouts
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list_palettes() - List Available Color Palettes
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list_shapes() - List Available Shapes
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list_svg_shapes() - List Registered SVG Shapes
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list_themes() - List Available Themes
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n_edges() - Get Number of Edges
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n_nodes() - Get Number of Nodes
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neighborhood_overlap() - Neighborhood Overlap (Jaccard) for Each Edge
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overlay_communities() - Overlay Community Blobs on a Network Plot
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palette_blues() - Blues Palette
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palette_colorblind() - Colorblind-friendly Palette
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palette_diverging() - Diverging Palette
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palette_pastel() - Pastel Palette
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palette_rainbow() - Rainbow Palette
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palette_reds() - Reds Palette
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palette_viridis() - Viridis Palette
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palettes - Color Palettes
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project_bipartite() - Project Bipartite Network to One-Mode
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reaching_global() - Global Reaching Centrality (Mones, Vicsek & Vicsek 2012)
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register_layout() - Register a Custom Layout
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register_shape() - Register a Custom Shape
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register_svg_shape() - Register Custom SVG Shape
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register_theme() - Register a Custom Theme
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render-ggplot - ggplot2 Conversion
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render-grid - Grid Rendering
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rich_club() - Rich Club Coefficient
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rich_club_local() - Local Rich Club Score
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set_edges() - Set Edges in Cograph Network
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set_layout() - Set Layout in Cograph Network
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set_nodes() - Set Nodes in Cograph Network
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shortest_paths() - Compute Shortest Path Distances
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simmelian_strength() - Simmelian Strength (Triangle Count per Edge)
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simplify() - Simplify a Network
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sn_edges() - Set Edge Aesthetics
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sn_ggplot() - Convert Network to ggplot2
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sn_layout() - Apply Layout to Network
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sn_nodes() - Set Node Aesthetics
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sn_palette() - Apply Color Palette to Network
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sn_save() - Save Network Visualization
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sn_save_ggplot() - Save as ggplot2
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sn_theme() - Apply Theme to Network
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soplot()sn_render() - Plot Cograph Network
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student_interactions - Student Interaction Edge List
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subgraphs() - Extract Specific Motif Instances (Subgraphs)
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summarize_network()cluster_network()cnet() - Summarize Network by Clusters
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theme_cograph_classic() - Classic Theme
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theme_cograph_colorblind() - Colorblind-friendly Theme
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theme_cograph_dark() - Dark Theme
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theme_cograph_gray() - Grayscale Theme
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theme_cograph_minimal() - Minimal Theme
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theme_cograph_nature() - Nature Theme
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theme_cograph_viridis() - Viridis Theme
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trophic_incoherence() - Trophic Incoherence Parameter
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unregister_svg_shape() - Unregister SVG Shape
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vulnerability() - Node Vulnerability