optpart: Optimal Partitioning of Similarity Relations

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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.

Author
David W. Roberts <droberts@montana.edu>
Date of publication
2016-09-20 18:46:42
Maintainer
David W. Roberts <droberts@montana.edu>
License
GPL (>= 2)
Version
2.3-0
URLs

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