Package: clustAnalytics 0.5.5

clustAnalytics: Cluster Evaluation on Graphs

Evaluates the stability and significance of clusters on 'igraph' graphs. Supports weighted and unweighted graphs. Implements the cluster evaluation methods defined by Arratia A, Renedo M (2021) <doi:10.7717/peerj-cs.600>. Also includes an implementation of the Reduced Mutual Information introduced by Newman et al. (2020) <doi:10.1103/PhysRevE.101.042304>.

Authors:Martí Renedo Mirambell

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clustAnalytics.pdf |clustAnalytics.html✨
clustAnalytics/json (API)

# Install 'clustAnalytics' in R:
install.packages('clustAnalytics', repos = c('https://martirm.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/martirm/clustanalytics/issues

Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:
  • g_forex - Forex correlation network

On CRAN:

5.09 score 4 stars 31 scripts 310 downloads 23 exports 34 dependencies

Last updated 9 months agofrom:f1bf549cda. Checks:OK: 9. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 14 2024
R-4.5-win-x86_64OKNov 14 2024
R-4.5-linux-x86_64OKNov 14 2024
R-4.4-win-x86_64OKNov 14 2024
R-4.4-mac-x86_64OKNov 14 2024
R-4.4-mac-aarch64OKNov 14 2024
R-4.3-win-x86_64OKNov 14 2024
R-4.3-mac-x86_64OKNov 14 2024
R-4.3-mac-aarch64OKNov 14 2024

Exports:apply_subgraphsaverage_degreeaverage_odfbarabasi_albert_blocksboot_alg_listconductancecoveragecut_ratiodensity_ratioedges_insideevaluate_significanceevaluate_significance_rexpansionFOMDinternal_densitymax_odfnormalized_cutreduced_mutual_informationrelabelrewireCppscoring_functionsweighted_clustering_coefficientweighted_transitivity

Dependencies:aricodebootclicpp11dplyrfansiforeignfossilgenericsglueigraphlatticelifecyclelpSolvemagrittrmapsMatrixmcclustmclustpillarpkgconfigR6rbibutilsRcppRdpackrlangshapefilessptibbletidyselecttruncnormutf8vctrswithr

Cluster Stability

Rendered fromcluster_stability.Rmdusingknitr::rmarkdownon Nov 14 2024.

Last update: 2022-02-14
Started: 2022-02-14

Graph Rewiring Functions

Rendered fromgraph_rewiring_functions.Rmdusingknitr::rmarkdownon Nov 14 2024.

Last update: 2022-02-17
Started: 2022-02-14

Graph Scoring Functions

Rendered fromscoring_functions.Rmdusingknitr::rmarkdownon Nov 14 2024.

Last update: 2022-02-14
Started: 2022-02-14

Other Functions

Rendered fromother_functions.Rmdusingknitr::rmarkdownon Nov 14 2024.

Last update: 2022-02-14
Started: 2022-02-14

Stability and Significance Examples

Rendered fromstability_significance_examples.Rmdusingknitr::rmarkdownon Nov 14 2024.

Last update: 2022-08-16
Started: 2021-11-23

Readme and manuals

Help Manual

Help pageTopics
Average Degreeaverage_degree
Average Out Degree Fractionaverage_odf
Generates a Barabási-Albert graph with community structurebarabasi_albert_blocks
Performs nonparametric bootstrap to a graph and a list of clustering algorithmsboot_alg_list
Conductanceconductance
Computes possible membership vectors from contingency tablecontingency_to_membership_vectors
Natural logarithm of the number of contingency tablescount_contingency_tables_log
Coveragecoverage
Cut Ratiocut_ratio
Density Ratiodensity_ratio
Edges Insideedges_inside
Estimates |H_0|/|H_r*|estimate_H_fraction_r_rows
Evaluates significance of cluster algorithm results on a graphevaluate_significance
Evaluates the significance of a graph's clustersevaluate_significance_r
Expansionexpansion
FOMD (Fraction Over Median Degree)FOMD
Forex correlation networkg_forex
Returns edgelist with weights from a weighted igraph graphigraph_to_edgelist
Internal Densityinternal_density
Make graph weightedmake_graph_weighted
Max Out Degree Fractionmax_odf
Normalized cutnormalized_cut
Maximum, Average, and Flake Out Degree Fractions of a Graph Partitionout_degree_fractions
Reduced Mutual Informationreduced_mutual_information
Relabels membership vectorrelabel
Randomizes a weighted graph while keeping the degree distribution constant.rewireCpp
Scoring Functions of a Graph Partitionscoring_functions
Sort matrixsort_matrix
Triangle Participation Ratio (community-wise)triangle_participation_ratio_communities
Weighted clustering coefficient of a weighted graph.weighted_clustering_coefficient
Weighed transitivity of a weighted graph.weighted_transitivity