fpc v2.2-9

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Flexible Procedures for Clustering

Various methods for clustering and cluster validation. Fixed point clustering. Linear regression clustering. Clustering by merging Gaussian mixture components. Symmetric and asymmetric discriminant projections for visualisation of the separation of groupings. Cluster validation statistics for distance based clustering including corrected Rand index. Standardisation of cluster validation statistics by random clusterings and comparison between many clustering methods and numbers of clusters based on this. Cluster-wise cluster stability assessment. Methods for estimation of the number of clusters: Calinski-Harabasz, Tibshirani and Walther's prediction strength, Fang and Wang's bootstrap stability. Gaussian/multinomial mixture fitting for mixed continuous/categorical variables. Variable-wise statistics for cluster interpretation. DBSCAN clustering. Interface functions for many clustering methods implemented in R, including estimating the number of clusters with kmeans, pam and clara. Modality diagnosis for Gaussian mixtures. For an overview see package?fpc.

Functions in fpc

Name Description
cdbw CDbw-index for cluster validation
adcoord Asymmetric discriminant coordinates
cat2bin Recode nominal variables to binary variables
bhattacharyya.matrix Matrix of pairwise Bhattacharyya distances
awcoord Asymmetric weighted discriminant coordinates
batcoord Bhattacharyya discriminant projection
bhattacharyya.dist Bhattacharyya distance between Gaussian distributions
calinhara Calinski-Harabasz index
can Generation of the tuning constant for regression fixed point clusters
ancoord Asymmetric neighborhood based discriminant coordinates
clusexpect Expected value of the number of times a fixed point cluster is found
cluster.magazine Run many clustering methods on many numbers of clusters
cluster.stats Cluster validation statistics
clucols Sets of colours and symbols for cluster plotting
clujaccard Jaccard similarity between logical vectors
clustatsum Compute and format cluster validation statistics
classifdist Classification of unclustered points
cgrestandard Standardise cluster validation statistics by random clustering results
cvnn Cluster validation based on nearest neighbours
cweight Weight function for AWC
cluster.varstats Variablewise statistics for clusters
confusion Misclassification probabilities in mixtures
con.comp Connectivity components of an undirected graph
clusterbenchstats Run and validate many clusterings
cov.wml Weighted Covariance Matrices (Maximum Likelihood)
cqcluster.stats Cluster validation statistics (version for use with clusterbenchstats
clusterboot Clusterwise cluster stability assessment by resampling
dbscan DBSCAN density reachability and connectivity clustering
dipp.tantrum Simulates p-value for dip test
dudahart2 Duda-Hart test for splitting
cmahal Generation of tuning constant for Mahalanobis fixed point clusters.
discrete.recode Recodes mixed variables dataset
diptest.multi Diptest for discriminant coordinate projection
distrsimilarity Similarity of within-cluster distributions to normal and uniform
findrep Finding representatives for cluster border
dridgeline Density along the ridgeline
fpc-package fpc package overview
discrcoord Discriminant coordinates/canonical variates
fixmahal Mahalanobis Fixed Point Clusters
flexmixedruns Fitting mixed Gaussian/multinomial mixtures with flexmix
mahalanodisc Mahalanobis for AWC
distancefactor Factor for dissimilarity of mixed type data
distcritmulti Distance based validity criteria for large data sets
fixreg Linear Regression Fixed Point Clusters
mahalanofix Mahalanobis distances from center of indexed points
extract.mixturepars Extract parameters for certain components from mclust
itnumber Number of regression fixed point cluster iterations
kmeansCBI Interface functions for clustering methods
discrproj Linear dimension reduction for classification
jittervar Jitter variables in a data matrix
mergenormals Clustering by merging Gaussian mixture components
plotcluster Discriminant projection plot.
mahalconf Mahalanobis fixed point clusters initial configuration
pamk Partitioning around medoids with estimation of number of clusters
fpclusters Extracting clusters from fixed point cluster objects
piridge Ridgeline Pi-function
mvdcoord Mean/variance differences discriminant coordinates
ncoord Neighborhood based discriminant coordinates
simmatrix Extracting intersections between clusters from fpc-object
regmix Mixture Model ML for Clusterwise Linear Regression
ridgeline Ridgeline computation
prediction.strength Prediction strength for estimating number of clusters
minsize Minimum size of regression fixed point cluster
ridgeline.diagnosis Ridgeline plots, ratios and unimodality
plot.valstat Simulation-standardised plot and print of cluster validation statistics
mergeparameters New parameters from merging two Gaussian mixture components
piridge.zeroes Extrema of two-component Gaussian mixture
randconf Generate a sample indicator vector
rFace "Face-shaped" clustered benchmark datasets
weightplots Ordered posterior plots
randomclustersim Simulation of validity indexes based on random clusterings
mixpredictive Prediction strength of merged Gaussian mixture
mixdens Density of multivariate Gaussian mixture, mclust parameterisation
xtable Partition crosstable with empty clusters
randcmatrix Random partition matrix
stupidkaven Stupid average dissimilarity random clustering
localshape Local shape matrix
wfu Weight function (for Mahalabobis distances)
neginc Neg-entropy normality index for cluster validation
kmeansruns k-means with estimating k and initialisations
lcmixed flexmix method for mixed Gaussian/multinomial mixtures
tdecomp Root of singularity-corrected eigenvalue decomposition
tonedata Tone perception data
nselectboot Selection of the number of clusters via bootstrap
zmisclassification.matrix Matrix of misclassification probabilities between mixture components
solvecov Inversion of (possibly singular) symmetric matrices
stupidkcentroids Stupid k-centroids random clustering
sseg Position in a similarity vector
unimodal.ind Is a fitted denisity unimodal or not?
valstat.object Cluster validation statistics - object
stupidkfn Stupid farthest neighbour random clustering
stupidknn Stupid nearest neighbour random clustering
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Date 2020-12-06
License GPL
URL https://www.unibo.it/sitoweb/christian.hennig/en/
NeedsCompilation no
Packaged 2020-12-06 19:13:55 UTC; chrish
Repository CRAN
Date/Publication 2020-12-06 20:10:02 UTC

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