Package index • multiweb

All functions

BuildSupraAdjacencyMatrixFromExtendedEdgelist(): Build supra-adjacency matrix from edge lists
PotterCove_bm: Potter Cove Body Mass and Biomass Dataset
add_interlayer_links(): Generate Node aligned Interlayer Edges for a Multilayer Network from the function convert_to_intra_format
aggregate_multiplex_network(): Aggregate a Multiplex Network into a Single Layer
calc_QSS(): Calc the Quasi Sign Stability measure for antagonistic (predator-prey) or mgraph networks with multiple interactions.
calc_QSS_extinction_dif(): Calculates the QSS difference between the full network and the network minus one species
calc_QSS_extinction_dif_grp(): Calculates the QSS difference between the full network and the network minus a group of species
calc_QSS_extinctions_seq(): Calculates the QSS for an extinction sequence
calc_centrality(): Compute Centrality for a Weighted/Unweighted Network
calc_incoherence(): Calculate the incoherence index of a food web
calc_interaction_intensity(): Calculates the interaction intensity of a food web using the metabolic theory and the interaction dimensionality
calc_interaction_intensity2(): Calculates the interaction intensity of a food web using allometric scaling relationships to approximate basal metabolic rate
calc_modularity(): Calculation of Modularity for a List of igraph Objects
calc_modularity_swness_zscore(): Calculation of Modularity and Small-world-ness z-scores
calc_pagerank_ap(): PageRank importance of species in a food web following Allesina & Pascual (2009)
calc_quantitative_connectance(): Calculates the quantitative connectance, and the effective number of flows using the interaction matrix and a vector of species abundances
calc_stability_threshold(): Estimate the dynamic stability threshold of an ecological network
calc_svd_entropy(): Singular Value Decomposition (SVD) Entropy and Rank Calculation
calc_svd_entropy_importance(): Singular Value Decomposition (SVD) Analysis of Networks
calc_swness_zscore(): Calculation Small-world-ness z-scores
calc_topological_indices(): Calculate topological indices for ecological networks. The mean trophic level and Omnivory and the Level of omnivory are calculated with the function NetIndices::TrophInd()
calc_topological_roles(): Calculate Topological Roles Within Network Modules
calc_weighted_topological_indices(): Function to calculate weighted network indices
classify_topological_roles(): Classify and plot topological roles
convert_infomap_result_to_muxviz(): Convert Infomap Community Output to muxViz-Compatible Format
convert_to_intra_format(): Convert a List of igraph Objects to Intralayer Edge Format
convert_to_supra_adjacency(): Convert Multilayer Network to Supra-Adjacency Matrix (SAM)
curve_ball(): Curbe ball algorithm to generate random networks with given an igraph network
fromGLVadjToIgraph(): From Generalized Lotka Volterra adjacency matrix to igraph topological object
fromIgraphToMgraph(): From multiple igraph objects to 'mgraph'
generate_er_basal(): Generate directed Erdos-Renyi random networks with at least 1 basal node and only one component
generate_niche(): Generate Niche Model Food Web(s)
generate_shuffled_seq(): Generate a Sequence of Shuffled Networks and Track Metric Evolution
generate_shuffled_seq_tol(): Generate a Sequence of Shuffled Networks and Track SVD/Modularity Evolution
harmonize_node_sets(): Harmonize Node Sets Across Layers in a Multiplex Network
metadata: Metadata for netData
netData: Compilation of Ecological Networks (food webs) in igraph format.
plot_multi3D(): 3D Visualization of a Multiplex Ecological Network
plot_multiplex_modules(): Plot Modular Structure of a Multiplex Ecological Network
plot_stability_curve(): Plot stability threshold search curve
plot_troph_level(): Plot ecological network organized by trophic level, with node size determined by the node degree, and modules.
plot_troph_level_ggplot(): Plot an Ecological Network Organized by Trophic Level
plot_troph_level_ggraph(): Plot an Ecological Network Organized by Trophic Level using ggraph
plot_troph_level_visNet(): Plot an Ecological Network Organized by Trophic Level using visNetwork
plot_troph_level_visNet_multi(): Plot a Multiplex Ecological Network Organized by Trophic Level using visNetwork
readMultiplex(): Read ecological multiplex networks using different files for each layer as a 'node-aligned' multilayer network
readNetwork(): Read ecological networks in CSV or tab separated file format as edge list or adyacency matrix
run_infomap(): Interface R and igraph with Infomap (external binary)
run_infomap_multi(): Run Infomap on Multilayer Networks with Intralayer Links
shuffle_network_deg(): Degree-Preserving Network Shuffling via Edge Swaps
shuffle_network_ws(): Random Network Rewiring Without Preserving Degree Distribution
toGLVadjMat(): From multiple interaction object 'mgraph'to GLV adjacency matrix
write_multilayer_network(): Write a Multilayer Network to a File in Infomap-Compatible Format