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.

AuthorDavid W. Roberts <droberts@montana.edu>
Date of publication2016-09-20 18:46:42
MaintainerDavid W. Roberts <droberts@montana.edu>
LicenseGPL (>= 2)
Version2.3-0
http://ecology.msu.montana.edu/labdsv/R

View on CRAN

Man pages

archi: Archipelago Analysis

bestfit: Identify the Goodness-of-Fit of Cluster Members

bestopt: Best Of Set Optimal Partitions From Random Starts

classmatch: Classification Matching and Differencing

clique: Maximal Clique Analysis

clique.test: Clique Test

clustering: Clustering Object

compare: Compare Species Constancy for Specified Clusters

confus: Confusion Matrix

consider: Recommendations for Possible Merging of Clusters

disdiam: Dissimilarity Diameters of a Partition

extract: Extract A Specific Cluster Solution From A Stride

fuzconfus: Fuzzy Confusion Matrix

maxpact: Maximally Compact Sets Analysis

mergeclust: Merge Specified Clusters in a Classification

murdoch: Indicator Species Analysis by Murdoch Preference Function

neighbor: Neighbor Analysis of Partitions

optindval: Optimizing Classification by Maximizing Dufrene and...

optpart: Optimal Partitioning of Dissimilarity/Distance Matrices

optpart.internal: Internal Optpart Functions

optsil: Clustering by Optimizing Silhouette Widths

opttdev: Optimizing Classification by Minimizing Table Deviance

partana: Partition Analysis

partition: Convert Object to Partition Object

phi: Calculating the phi Statistic on Taxon Classifications

refine: Refining a Classification by Re-Assigning Memberships

reordclust: Re-order Clusters in a Classification

shoshsite: Site Data for the Shoshone National Forest, Wyoming, USA

shoshveg: Vascular Plant Species Cover for the Shoshone National...

silhouette: Produce a Silhouette Object From a Partana, Clustering, or...

slice: Slice a Hierarchical Clustering Dendrogram with a Mouse

stride: Stride: Producing a Sequence of Clusterings

tabdev: Classification Validity Assessment by Table Deviance

testpart: Identify Misclassified Plots in a Partition

typal: Identification of Typal Samples in a Partition

Files in this package

optpart
optpart/inst
optpart/inst/ChangeLog
optpart/src
optpart/src/opttdev.f
optpart/src/tabdev.f
optpart/src/clcdev.f
optpart/src/optsil.f
optpart/src/random.c
optpart/src/maxpact.f
optpart/src/optindval.f
optpart/src/optpart.f
optpart/src/permute.f
optpart/src/archi.f
optpart/src/clcdul.f
optpart/src/clique.f
optpart/NAMESPACE
optpart/data
optpart/data/shoshveg.rda
optpart/data/shoshsite.rda
optpart/R
optpart/R/phi.R optpart/R/clique.R optpart/R/murdoch.R optpart/R/consider.R optpart/R/typal.R optpart/R/classmatch.R optpart/R/stride.R optpart/R/optsil.R optpart/R/bestfit.R optpart/R/opttdev.R optpart/R/clustify.R optpart/R/testpart.R optpart/R/slice.R optpart/R/reordclust.R optpart/R/partition.R optpart/R/partana.R optpart/R/optindval.R optpart/R/mergeclust.R optpart/R/tabdev.R optpart/R/archi.R optpart/R/disdiam.R optpart/R/silhouette.R optpart/R/optpart.R optpart/R/compare.R optpart/R/refine.R optpart/R/maxpact.R optpart/R/neighbor.R optpart/R/confus.R
optpart/MD5
optpart/DESCRIPTION
optpart/man
optpart/man/partana.Rd optpart/man/refine.Rd optpart/man/testpart.Rd optpart/man/bestopt.Rd optpart/man/mergeclust.Rd optpart/man/optsil.Rd optpart/man/maxpact.Rd optpart/man/murdoch.Rd optpart/man/neighbor.Rd optpart/man/tabdev.Rd optpart/man/clique.test.Rd optpart/man/archi.Rd optpart/man/shoshsite.Rd optpart/man/silhouette.Rd optpart/man/bestfit.Rd optpart/man/reordclust.Rd optpart/man/clustering.Rd optpart/man/opttdev.Rd optpart/man/optindval.Rd optpart/man/optpart.internal.Rd optpart/man/compare.Rd optpart/man/consider.Rd optpart/man/shoshveg.Rd optpart/man/clique.Rd optpart/man/partition.Rd optpart/man/typal.Rd optpart/man/fuzconfus.Rd optpart/man/optpart.Rd optpart/man/phi.Rd optpart/man/slice.Rd optpart/man/disdiam.Rd optpart/man/confus.Rd optpart/man/extract.Rd optpart/man/classmatch.Rd optpart/man/stride.Rd

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