igraph v1.0.1

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by Gabor Csardi

Network Analysis and Visualization

Routines for simple graphs and network analysis. It can handle large graphs very well and provides functions for generating random and regular graphs, graph visualization, centrality methods and much more.

Functions in igraph

Name Description
adjacent_vertices Adjacent vertices of multiple vertices in a graph
is_directed Check whether a graph is directed
count_subgraph_isomorphisms Count the isomorphic mappings between a graph and the subgraphs of another graph
make_ Make a new graph
edge_attr_names List names of edge attributes
hub_score Kleinberg's hub centrality scores.
cohesive_blocks Calculate Cohesive Blocks
c.igraph.es Concatenate edge sequences
bipartite_projection Project a bipartite graph
alpha_centrality Find Bonacich alpha centrality scores of network positions
as_adj_list Adjacency lists
as_incidence_matrix Incidence matrix of a bipartite graph
as_graphnel Convert igraph graphs to graphNEL objects from the graph package
cluster_label_prop Finding communities based on propagating labels
centr_degree Centralize a graph according to the degrees of vertices
c.igraph.vs Concatenate vertex sequences
gclust.app Graph Clustering Using NMF (and no SVT) -- Apparent Clusters
cluster_walktrap Community strucure via short random walks
authority_score Kleinberg's authority centrality scores.
compose Compose two graphs as binary relations
estimate_betweenness Vertex and edge betweenness centrality
dim_select Dimensionality selection for singular values using profile likelihood.
add_vertices Add vertices to a graph
layout_as_tree The Reingold-Tilford graph layout algorithm
canonical_permutation Canonical permutation of a graph
V Vertices of a graph
console The igraph console
all_simple_paths List all simple paths from one source
cluster_louvain Finding community structure by multi-level optimization of modularity
add_edges Add edges to a graph
automorphisms Number of automorphisms
make_lattice Create a lattice graph
cluster_leading_eigen Community structure detecting based on the leading eigenvector of the community matrix
distance_table Shortest (directed or undirected) paths between vertices
centr_eigen Centralize a graph according to the eigenvector centrality of vertices
contract Contract several vertices into a single one
arpack_defaults ARPACK eigenvector calculation
as_membership Declare a numeric vector as a membership vector
are_adjacent Are two vertices adjacent?
coreness K-core decomposition of graphs
cluster_optimal Optimal community structure
as_edgelist Convert a graph to an edge list
delete_edges Delete edges from a graph
difference Difference of two sets
as_data_frame Creating igraph graphs from data frames or vice-versa
ends Incident vertices of some graph edges
count_triangles Find triangles in graphs
gsize The size of the graph (number of edges)
centr_degree_tmax Theoretical maximum for degree centralization
complementer Complementer of a graph
dyad_census Dyad census of a graph
centr_betw Centralize a graph according to the betweenness of vertices
girth Girth of a graph
edge_density Graph density
count_motifs Graph motifs
edge Helper function for adding and deleting edges
intersection.igraph.es Intersection of edge sequences
print.igraph.vs Show a vertex sequence on the screen
membership Functions to deal with the result of network community detection
rep.igraph Replicate a graph multiple times
count_isomorphisms Count the number of isomorphic mappings between two graphs
cluster_spinglass Finding communities in graphs based on statistical meachanics
delete_graph_attr Delete a graph attribute
erdos.renyi.game Generate random graphs according to the Erdos-Renyi model
rglplot 3D plotting of graphs with OpenGL
fit_hrg Fit a hierarchical random graph model
igraph_version Query igraph's version string
graph_from_literal Creating (small) graphs via a simple interface
articulation_points Articulation points of a graph
igraph-es-indexing Indexing edge sequences
component_wise Component-wise layout
graph_attr_names List names of graph attributes
graph_from_lcf Creating a graph from LCF notation
hrg_tree Create an igraph graph from a hierarchical random graph model
is_degseq Check if a degree sequence is valid for a multi-graph
igraph_demo Run igraph demos, step by step
head_of Head of the edge(s) in a graph
edge_attr Query edge attributes of a graph
ivs Independent vertex sets
as_long_data_frame Convert a graph to a long data frame
bipartite_mapping Decide whether a graph is bipartite
igraph_test Run package tests
dominator_tree Dominator tree
igraph-es-attributes Query or set attributes of the edges in an edge sequence
layout.reingold.tilford Deprecated layout functions
centralize Centralization of a graph
keeping_degseq Graph rewiring while preserving the degree distribution
centr_clo Centralize a graph according to the closeness of vertices
isomorphic Decide if two graphs are isomorphic
centr_clo_tmax Theoretical maximum for closeness centralization
graph_from_adjacency_matrix Create graphs from adjacency matrices
igraph_options Parameters for the igraph package
sample_degseq Generate random graphs with a given degree sequence
make_full_bipartite_graph Create a full bipartite graph
is_separator Vertex separators
eigen_centrality Find Eigenvector Centrality Scores of Network Positions
cluster_edge_betweenness Community structure detection based on edge betweenness
plot_dendrogram.igraphHRG HRG dendrogram plot
igraph-vs-indexing Indexing vertex sequences
hrg Create a hierarchical random graph from an igraph graph
layout_on_grid Simple grid layout
set_graph_attr Set a graph attribute
is_graphical Is a degree sequence graphical?
sample_grg Geometric random graphs
scg All-in-one Function for the SCG of Matrices and Graphs
layout.fruchterman.reingold.grid Grid Fruchterman-Reingold layout, this was removed from igraph
spectrum Eigenvalues and eigenvectors of the adjacency matrix of a graph
graph_ Convert object to a graph
consensus_tree Create a consensus tree from several hierarchical random graph models
min_cut Minimum cut in a graph
layout_with_graphopt The graphopt layout algorithm
igraph-es-indexing2 Select edges and show their metadata
layout.spring Spring layout, this was removed from igraph
print.nexusDatasetInfo Query and download from the Nexus network repository
isomorphisms Calculate all isomorphic mappings between the vertices of two graphs
[.igraph Query and manipulate a graph as it were an adjacency matrix
laplacian_matrix Graph Laplacian
make_tree Create tree graphs
as.directed Convert between directed and undirected graphs
layout_randomly Randomly place vertices on a plane or in 3d space
cluster_fast_greedy Community structure via greedy optimization of modularity
layout_on_sphere Graph layout with vertices on the surface of a sphere
scg-method Spectral Coarse Graining
is_weighted Weighted graphs
layout_with_kk The Kamada-Kawai layout algorithm
as.igraph Conversion to igraph
make_chordal_ring Create an extended chordal ring graph
max_cardinality Maximum cardinality search
neighbors Neighboring (adjacent) vertices in a graph
make_star Create a star graph, a tree with n vertices and n - 1 leaves
compare Compares community structures using various metrics
make_line_graph Line graph of a graph
convex_hull Convex hull of a set of vertices
layout_with_dh The Davidson-Harel layout algorithm
sample_gnm Generate random graphs according to the G(n,m) Erdos-Renyi model
motifs Graph motifs
curve_multiple Optimal edge curvature when plotting graphs
unfold_tree Convert a general graph into a forest
st_cuts List all (s,t)-cuts of a graph
sample_correlated_gnp Generate a new random graph from a given graph by randomly adding/removing edges
min_separators Minimum size vertex separators
sample_fitness Random graphs from vertex fitness scores
cluster_infomap Infomap community finding
ego Neighborhood of graph vertices
predict_edges Predict edges based on a hierarchical random graph model
gorder Order (number of vertices) of a graph
max_flow Maximum flow in a graph
diverging_pal Diverging palette
sample_k_regular Create a random regular graph
get.edge.ids Find the edge ids based on the incident vertices of the edges
print.igraph.es Print an edge sequence to the screen
layout.svd SVD layout, this was removed from igraph
embed_laplacian_matrix Spectral Embedding of the Laplacian of a Graph
scg_eps Error of the spectral coarse graining (SCG) approximation
edge_connectivity Edge connectivity.
layout_in_circle Graph layout with vertices on a circle.
add_layout_ Add layout to graph
time_bins.sir SIR model on graphs
subgraph_centrality Find subgraph centrality scores of network positions
r_pal The default R palette
E Edges of a graph
Drawing graphs Drawing graphs
tkigraph Experimental basic igraph GUI
union.igraph.vs Union of vertex sequences
sample_forestfire Forest Fire Network Model
embed_adjacency_matrix Spectral Embedding of Adjacency Matrices
scg_semi_proj Semi-Projectors
rev.igraph.vs Reverse the order in a vertex sequence
random_walk Random walk on a graph
graphlet_basis Graphlet decomposition of a graph
srand Deprecated function, used to set random seed of the C library's RNG
cliques The functions find cliques, ie. complete subgraphs in a graph
subgraph_isomorphic Decide if a graph is subgraph isomorphic to another one
print.igraphHRGConsensus Print a hierarchical random graph consensus tree to the screen
sample_pa Generate scale-free graphs according to the Barabasi-Albert model
centr_betw_tmax Theoretical maximum for betweenness centralization
transitivity Transitivity of a graph
delete_vertices Delete vertices from a graph
union Union of two or more sets
as_adjacency_matrix Convert a graph to an adjacency matrix
diameter Diameter of a graph
fit_power_law Fitting a power-law distribution function to discrete data
sample_ Sample from a random graph model
dfs Depth-first search
sample_seq Sampling a random integer sequence
hrg-methods Hierarchical random graphs
vertex_connectivity Vertex connectivity.
sample_sbm Sample stochastic block model
layout_with_fr The Fruchterman-Reingold layout algorithm
graph_from_graphdb Load a graph from the graph database for testing graph isomorphism.
set_edge_attr Set edge attributes
isomorphism_class Isomorphism class of a graph
igraph-attribute-combination How igraph functions handle attributes when the graph changes
write_graph Writing the graph to a file in some format
make_ring Create a ring graph
is_named Named graphs
layout_as_star Generate coordinates to place the vertices of a graph in a star-shape
rev.igraph.es Reverse the order in an edge sequence
vertex_attr<- Set one or more vertex attributes
is_chordal Chordality of a graph
sample_motifs Graph motifs
layout_nicely Choose an appropriate graph layout algorithm automatically
without_multiples Constructor modifier to drop multiple edges
layout_with_gem The GEM layout algorithm
with_vertex_ Constructor modifier to add vertex attributes
each_edge Rewires the endpoints of the edges of a graph to a random vertex
gclust.rsvt Graph Clustering Using SVT and NMF -- Clusters Implied by Singular Value Thresholding
which_multiple Find the multiple or loop edges in a graph
make_empty_graph A graph with no edges
%>% Magrittr's pipes
layout_with_lgl Large Graph Layout
match_vertices Match Graphs given a seeding of vertex correspondences
make_full_graph Create a full graph
is_bipartite Create a bipartite graph
sample_traits_callaway Graph generation based on different vertex types
intersection Intersection of two or more sets
layout_ Graph layouts
sample_sphere_volume Sample vectors uniformly from the volume of a sphere
sample_correlated_gnp_pair Sample a pair of correlated G(n,p) random graphs
scan_stat Scan statistics on a time series of graphs
make_de_bruijn_graph De Bruijn graphs
make_clusters Creates a communities object.
set_vertex_attr Set vertex attributes
similarity Similarity measures of two vertices
make_graph Create an igraph graph from a list of edges, or a notable graph
permute Permute the vertices of a graph
shapes Various vertex shapes when plotting igraph graphs
merge_coords Merging graph layouts
categorical_pal Palette for categories
stochastic_matrix Stochastic matrix of a graph
[[.igraph Query and manipulate a graph as it were an adjacency list
delete_vertex_attr Delete a vertex attribute
closeness Closeness centrality of vertices
mst Minimum spanning tree
tkplot Interactive plotting of graphs
plot.sir Plotting the results on multiple SIR model runs
simplify Simple graphs
path Helper function to add or delete edges along a path
vertex_attr Query vertex attributes of a graph
modularity.igraph Modularity of a community structure of a graph
bfs Breadth-first search
graph_from_adj_list Create graphs from adjacency lists
plot.igraph Plotting of graphs
power_centrality Find Bonacich Power Centrality Scores of Network Positions
biconnected_components Biconnected components
decompose Decompose a graph into components
sample_hierarchical_sbm Sample the hierarchical stochastic block model
layout_with_drl The DrL graph layout generator
igraph-dollar Getting and setting graph attributes, shortcut
graph_attr Graph attributes of a graph
sample_fitness_pl Scale-free random graphs, from vertex fitness scores
sample_gnp Generate random graphs according to the G(n,p) Erdos-Renyi model
difference.igraph.vs Difference of vertex sequences
make_full_citation_graph Create a complete (full) citation graph
sequential_pal Sequential palette
topo_sort Topological sorting of vertices in a graph
upgrade_graph Igraph data structure versions
graph_from_isomorphism_class Create a graph from an isomorphism class
igraph-vs-indexing2 Select vertices and show their metadata
igraph-minus Delete vertices or edges from a graph
page_rank The Page Rank algorithm
is_matching Graph matching
rewire Rewiring edges of a graph
normalize Normalize layout
sample_dot_product Generate random graphs according to the random dot product graph model
union.igraph.es Union of edge sequences
+.igraph Add vertices, edges or another graph to a graph
print.igraphHRG Print a hierarchical random graph model to the screen
norm_coords Normalize coordinates for plotting graphs
st_min_cuts List all minimum \((s,t)\)-cuts of a graph
tail_of Tails of the edge(s) in a graph
with_edge_ Constructor modifier to add edge attributes
unique.igraph.es Remove duplicate edges from an edge sequence
union.igraph Union of graphs
assortativity Assortativity coefficient
constraint Burt's constraint
without_attr Construtor modifier to remove all attributes from a graph
graph_attr<- Set all or some graph attributes
difference.igraph.es Difference of edge sequences
graph_from_incidence_matrix Create graphs from an incidence matrix
identical_graphs Decide if two graphs are identical
centr_eigen_tmax Theoretical maximum for betweenness centralization
getAICc Compute AIC based on a Poisson Approximation using the output from gclust
graph_from_atlas Create a graph from the Graph Atlas
graph_from_edgelist Create a graph from an edge list matrix
incident Incident edges of a vertex in a graph
is_igraph Is this object an igraph graph?
running_mean Running mean of a time series
print.igraph Print graphs to the terminal
sample_last_cit Random citation graphs
scg_group SCG Problem Solver
strength Strength or weighted vertex degree
vertex_attr_names List names of vertex attributes
cocitation Cocitation coupling
difference.igraph Difference of graphs
disjoint_union Disjoint union of graphs
eccentricity Eccentricity of the vertices in a graph
diversity Graph diversity
intersection.igraph Intersection of graphs
make_kautz_graph Kautz graphs
plot_dendrogram Community structure dendrogram plots
read_graph Reading foreign file formats
sample_pa_age Generate an evolving random graph with preferential attachment and aging
sample_islands A graph with subgraphs that are each a random graph.
sample_smallworld The Watts-Strogatz small-world model
split_join_distance Split-join distance of two community structures
igraph-package The igraph package
degree Degree and degree distribution of the vertices
delete_edge_attr Delete an edge attribute
vertex Helper function for adding and deleting vertices
graph_version Igraph data structure versions
unique.igraph.vs Remove duplicate vertices from a vertex sequence
is_min_separator Minumal vertex separators
knn Average nearest neighbor degree
layout_as_bipartite Simple two-row layout for bipartite graphs
radius Radius of a graph
layout_with_mds Graph layout by multidimensional scaling
as_ids Convert a vertex or edge sequence to an ordinary vector
component_distribution Connected components of a graph
edge_attr<- Set one or more edge attributes
sample_pref Trait-based random generation
graph_from_graphnel Convert graphNEL objects from the graph package to igraph
sample_growing Growing random graph generation
groups Groups of a vertex partitioning
igraph-vs-attributes Query or set attributes of the vertices in a vertex sequence
intersection.igraph.vs Intersection of vertex sequences
reciprocity Reciprocity of graphs
min_st_separators Minimum size vertex separators
sample_bipartite Bipartite random graphs
subcomponent In- or out- component of a vertex
subgraph Subgraph of a graph
subgraph_isomorphisms All isomorphic mappings between a graph and subgraphs of another graph
simplified Constructor modifier to drop multiple and loop edges
without_loops Constructor modifier to drop loop edges
incident_edges Incident edges of multiple vertices in a graph
is_dag Directed acyclic graphs
layout_with_sugiyama The Sugiyama graph layout generator
local_scan Compute local scan statistics on graphs
sample_dirichlet Sample from a Dirichlet distribution
sample_hrg Sample from a hierarchical random graph model
sample_sphere_surface Sample vectors uniformly from the surface of a sphere
triad_census Triad census, subgraphs with three vertices
Pie charts as vertices Using pie charts as vertices in graph plots
with_graph_ Constructor modifier to add graph attributes
which_mutual Find mutual edges in a directed graph
edge_attr<- Set one or more edge attributes
graph_attr<- Set all or some graph attributes
vertex_attr<- Set one or more vertex attributes
%>% Magrittr's pipes
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License GPL (>= 2)
URL http://igraph.org
SystemRequirements gmp, libxml2
BugReports https://github.com/igraph/igraph/issues
Collate 'adjacency.R' 'auto.R' 'assortativity.R' 'attributes.R' 'basic.R' 'bipartite.R' 'centrality.R' 'centralization.R' 'cliques.R' 'cocitation.R' 'cohesive.blocks.R' 'printr.R' 'community.R' 'components.R' 'console.R' 'conversion.R' 'data_frame.R' 'decomposition.R' 'degseq.R' 'demo.R' 'embedding.R' 'epi.R' 'fit.R' 'flow.R' 'foreign.R' 'games.R' 'glet.R' 'hrg.R' 'igraph-package.R' 'incidence.R' 'indexing.R' 'interface.R' 'iterators.R' 'layout.R' 'layout_drl.R' 'lazyeval.R' 'make.R' 'mgclust.R' 'minimum.spanning.tree.R' 'motifs.R' 'nexus.R' 'operators.R' 'other.R' 'package.R' 'palette.R' 'par.R' 'paths.R' 'plot.R' 'plot.common.R' 'plot.shapes.R' 'pp.R' 'print.R' 'random_walk.R' 'rewire.R' 'scan.R' 'scg.R' 'sgm.R' 'similarity.R' 'simple.R' 'sir.R' 'socnet.R' 'sparsedf.R' 'structural.properties.R' 'structure.info.R' 'test.R' 'tkplot.R' 'topology.R' 'triangles.R' 'utils.R' 'uuid.R' 'versions.R' 'weakref.R' 'zzz-deprecate.R'
NeedsCompilation yes
Packaged 2015-06-26 01:04:44 UTC; gaborcsardi
Repository CRAN
Date/Publication 2015-06-26 11:13:24

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