This package is considered a duplicate. The official version of this package is found at:https://dvrbts.r-universe.dev/optpart

Package: optpart 3.0-3

David W. Roberts

optpart: Optimal Partitioning of Similarity Relations

Contains a set of algorithms for creating partitions and coverings of objects largely based on operations on (dis)similarity relations (or matrices). There are several iterative re-assignment algorithms optimizing different goodness-of-clustering criteria. In addition, there are covering algorithms 'clique' which derives maximal cliques, and 'maxpact' which creates a covering of maximally compact sets. Graphical analyses and conversion routines are also included.

Authors:David W. Roberts <[email protected]>

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

# Install 'optpart' in R:

install.packages('optpart', repos = c('https://cranhaven.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/cranhaven/cranhaven.r-universe.dev/issues

Datasets:

shoshsite - Site Data for the Shoshone National Forest, Wyoming, USA
shoshveg - Vascular Plant Species Cover for the Shoshone National Forest, Wyoming, USA

On CRAN:

archived packages r-universe fortran

2.40 score 5 stars 50 scripts 248 downloads 62 exports 10 dependencies

Last updated 11 days agofrom:01a1653eae (on package/optpart). Checks:1 OK, 8 NOTE. Indexed: no.

Target	Result	Latest binary
Doc / Vignettes	OK	Jan 10 2025
R-4.5-win-x86_64	NOTE	Jan 10 2025
R-4.5-linux-x86_64	NOTE	Jan 10 2025
R-4.4-win-x86_64	NOTE	Jan 10 2025
R-4.4-mac-x86_64	NOTE	Jan 10 2025
R-4.4-mac-aarch64	NOTE	Jan 10 2025
R-4.3-win-x86_64	NOTE	Jan 10 2025
R-4.3-mac-x86_64	NOTE	Jan 10 2025
R-4.3-mac-aarch64	NOTE	Jan 10 2025

Exports:archi bestfit bestopt classmatch clique clique.test clustify compare confus consider disdiam disdiam.default disdiam.stride extract extract.stride flexbeta gensilwidth getsets getsets.mss lambda maxsimset mergeclust mss.test murdoch neighbor optimclass optindval optpart optpart.default optpart.stride optsil optsil.default optsil.stride opttdev partana partana.default partana.partition partana.stride partition phi plot.clique plot.murdoch plot.partana plot.stride print.disdiam print.murdoch refine reordclust silhouette.clustering silhouette.partana silhouette.stride slice stride summary.clique summary.murdoch summary.partana summary.tabdev tabdev tabdev.default tabdev.stride testpart typal

Dependencies:cluster labdsv lattice MASS Matrix mgcv nlme plotrix Rcpp Rtsne

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Archipelago Analysis	archi
Identify the Goodness-of-Fit of Cluster Members	bestfit
Best Of Set Optimal Partitions From Random Starts	bestopt
Classification Matching and Differencing	classmatch
Maximal Clique Analysis	clique plot.clique summary.clique
Clique Test	clique.test
Clustering Object	clustering
Compare Species Constancy for Specified Clusters	compare
(Fuzzy) Confusion Matrix	confus fuzconfus
Recommendations for Possible Merging of Clusters	consider
Dissimilarity Diameters of a Partition	disdiam disdiam.default disdiam.stride print.disdiam
Extract A Specific Cluster Solution From A Stride	extract extract.stride
Calculate a Flexible-Beta Dendrogram	flexbeta
Generalized Silhouette Width	gensilwidth
Goodman- Kruskal Lambda Index of Classification Association	lambda
Maximally Similar Sets Analysis	getsets getsets.mss maxpact maxsimset mss.test plot.mss
Merge Specified Clusters in a Classification	mergeclust
Indicator Species Analysis by Murdoch Preference Function	murdoch plot.murdoch print.murdoch summary.murdoch
Neighbor Analysis of Partitions	neighbor
Optimum Classification by Counts of Indicator Species	optimclass
Optimizing Classification by Maximizing Dufrene and Legendre's Indicator Value	optindval
Optimal Partitioning of Dissimilarity/Distance Matrices	optpart optpart.clustering optpart.default optpart.partana optpart.partition optpart.stride
Clustering by Optimizing Silhouette Widths	optsil optsil.clustering optsil.default optsil.partana optsil.partition optsil.stride
Optimizing Classification by Minimizing Table Deviance	opttdev
Partition Analysis	partana partana.clustering partana.default partana.partition partana.stride plot.partana summary.partana
Convert Object to Partition Object	partition partition.clustering partition.partana
Calculating the phi Statistic on Taxon Classifications	phi
Refining a Classification by Re-Assigning Memberships	refine refine.default refine.dsvord refine.nmds refine.pco
Re-order Clusters in a Classification	reordclust
Site Data for the Shoshone National Forest, Wyoming, USA	shoshsite
Vascular Plant Species Cover for the Shoshone National Forest, Wyoming, USA	shoshveg
Produce a Silhouette Object From a Partana, Clustering, or Stride Object	silhouette.clustering silhouette.partana silhouette.stride testsil
Slice a Hierarchical Clustering Dendrogram with a Mouse	slice
Stride: Producing a Sequence of Clusterings	plot.stride stride
Classification Validity Assessment by Table Deviance	summary.tabdev tabdev tabdev.default tabdev.stride
Identify Misclassified Plots in a Partition	testpart
Identification of Typal Samples in a Partition	typal