R: Flexible Procedures for Clustering

# Flexible Procedures for Clustering

## Documentation for package ‘fpc’ version 2.2-13

- DESCRIPTION file.

## Help Pages

A B C D E F H I J K L M N P R S T U V W X Z

fpc-package | fpc package overview

## -- A --

adcoord | Asymmetric discriminant coordinates
ancoord | Asymmetric neighborhood based discriminant coordinates
awcoord | Asymmetric weighted discriminant coordinates

## -- B --

batcoord | Bhattacharyya discriminant projection
batvarcoord | Bhattacharyya discriminant projection
bhattacharyya.dist | Bhattacharyya distance between Gaussian distributions
bhattacharyya.matrix | Matrix of pairwise Bhattacharyya distances

## -- C --

calinhara | Calinski-Harabasz index
can | Generation of the tuning constant for regression fixed point clusters
cat2bin | Recode nominal variables to binary variables
cdbw | CDbw-index for cluster validation
cgrestandard | Standardise cluster validation statistics by random clustering results
claraCBI | Interface functions for clustering methods
classifdist | Classification of unclustered points
classifnp | Classification of unclustered points
clucols | Sets of colours and symbols for cluster plotting
clugrey | Sets of colours and symbols for cluster plotting
clujaccard | Jaccard similarity between logical vectors
clusexpect | Expected value of the number of times a fixed point cluster is found
clustatsum | Compute and format cluster validation statistics
cluster.magazine | Run many clustering methods on many numbers of clusters
cluster.stats | Cluster validation statistics
cluster.varstats | Variablewise statistics for clusters
clusterbenchstats | Run and validate many clusterings
clusterboot | Clusterwise cluster stability assessment by resampling
clusym | Sets of colours and symbols for cluster plotting
cmahal | Generation of tuning constant for Mahalanobis fixed point clusters.
con.comp | Connectivity components of an undirected graph
confusion | Misclassification probabilities in mixtures
cov.wml | Weighted Covariance Matrices (Maximum Likelihood)
cqcluster.stats | Cluster validation statistics (version for use with clusterbenchstats
cvnn | Cluster validation based on nearest neighbours
cweight | Weight function for AWC

## -- D --

dbscan | DBSCAN density reachability and connectivity clustering
dbscanCBI | Interface functions for clustering methods
dipp.tantrum | Simulates p-value for dip test
diptest.multi | Diptest for discriminant coordinate projection
discrcoord | Discriminant coordinates/canonical variates
discrete.recode | Recodes mixed variables dataset
discrproj | Linear dimension reduction for classification
distancefactor | Factor for dissimilarity of mixed type data
distcritmulti | Distance based validity criteria for large data sets
disthclustCBI | Interface functions for clustering methods
disthclusttreeCBI | Interface functions for clustering methods
distnoisemclustCBI | Interface functions for clustering methods
distrsimilarity | Similarity of within-cluster distributions to normal and uniform
dridgeline | Density along the ridgeline
dudahart2 | Duda-Hart test for splitting

## -- E --

emskewCBI | Interface functions for clustering methods
extract.mixturepars | Extract parameters for certain components from mclust

## -- F --

findrep | Finding representatives for cluster border
fixmahal | Mahalanobis Fixed Point Clusters
fixreg | Linear Regression Fixed Point Clusters
flexmixedruns | Fitting mixed Gaussian/multinomial mixtures with flexmix
fpclusters | Extracting clusters from fixed point cluster objects
fpclusters.mfpc | Mahalanobis Fixed Point Clusters
fpclusters.rfpc | Linear Regression Fixed Point Clusters
fpmi | Mahalanobis Fixed Point Clusters

## -- H --

hclustCBI | Interface functions for clustering methods
hclusttreeCBI | Interface functions for clustering methods

## -- I --

itnumber | Number of regression fixed point cluster iterations

## -- J --

jittervar | Jitter variables in a data matrix

## -- K --

kmeansCBI | Interface functions for clustering methods
kmeansruns | k-means with estimating k and initialisations

## -- L --

lcmixed | flexmix method for mixed Gaussian/multinomial mixtures
localshape | Local shape matrix

## -- M --

mahalanodisc | Mahalanobis for AWC
mahalanofix | Mahalanobis distances from center of indexed points
mahalanofuz | Mahalanobis distances from center of indexed points
mahalCBI | Interface functions for clustering methods
mahalconf | Mahalanobis fixed point clusters initial configuration
mergenormals | Clustering by merging Gaussian mixture components
mergenormCBI | Interface functions for clustering methods
mergeparameters | New parameters from merging two Gaussian mixture components
minsize | Minimum size of regression fixed point cluster
mixdens | Density of multivariate Gaussian mixture, mclust parameterisation
mixpredictive | Prediction strength of merged Gaussian mixture
mvdcoord | Mean/variance differences discriminant coordinates

## -- N --

ncoord | Neighborhood based discriminant coordinates
neginc | Neg-entropy normality index for cluster validation
noisemclustCBI | Interface functions for clustering methods
nselectboot | Selection of the number of clusters via bootstrap

## -- P --

pamk | Partitioning around medoids with estimation of number of clusters
pamkCBI | Interface functions for clustering methods
pdfclustCBI | Interface functions for clustering methods
piridge | Ridgeline Pi-function
piridge.zeroes | Extrema of two-component Gaussian mixture
plot.clboot | Clusterwise cluster stability assessment by resampling
plot.dbscan | DBSCAN density reachability and connectivity clustering
plot.mfpc | Mahalanobis Fixed Point Clusters
plot.rfpc | Linear Regression Fixed Point Clusters
plot.valstat | Simulation-standardised plot and print of cluster validation statistics
plotcluster | Discriminant projection plot.
predict.dbscan | DBSCAN density reachability and connectivity clustering
prediction.strength | Prediction strength for estimating number of clusters
print.clboot | Clusterwise cluster stability assessment by resampling
print.clusterbenchstats | Run and validate many clusterings
print.dbscan | DBSCAN density reachability and connectivity clustering
print.mfpc | Mahalanobis Fixed Point Clusters
print.predstr | Prediction strength for estimating number of clusters
print.rfpc | Linear Regression Fixed Point Clusters
print.summary.cquality | Cluster validation statistics (version for use with clusterbenchstats
print.summary.mergenorm | Clustering by merging Gaussian mixture components
print.summary.mfpc | Mahalanobis Fixed Point Clusters
print.summary.rfpc | Linear Regression Fixed Point Clusters
print.valstat | Simulation-standardised plot and print of cluster validation statistics
print.varwisetables | Variablewise statistics for clusters

## -- R --

randcmatrix | Random partition matrix
randconf | Generate a sample indicator vector
randomclustersim | Simulation of validity indexes based on random clusterings
regem | Mixture Model ML for Clusterwise Linear Regression
regmix | Mixture Model ML for Clusterwise Linear Regression
rFace | "Face-shaped" clustered benchmark datasets
rfpi | Linear Regression Fixed Point Clusters
ridgeline | Ridgeline computation
ridgeline.diagnosis | Ridgeline plots, ratios and unimodality

## -- S --

simmatrix | Extracting intersections between clusters from fpc-object
solvecov | Inversion of (possibly singular) symmetric matrices
speccCBI | Interface functions for clustering methods
sseg | Position in a similarity vector
stupidkaven | Stupid average dissimilarity random clustering
stupidkavenCBI | Interface functions for clustering methods
stupidkcentroids | Stupid k-centroids random clustering
stupidkcentroidsCBI | Interface functions for clustering methods
stupidkfn | Stupid farthest neighbour random clustering
stupidkfnCBI | Interface functions for clustering methods
stupidknn | Stupid nearest neighbour random clustering
stupidknnCBI | Interface functions for clustering methods
summary.cquality | Cluster validation statistics (version for use with clusterbenchstats
summary.mergenorm | Clustering by merging Gaussian mixture components
summary.mfpc | Mahalanobis Fixed Point Clusters
summary.rfpc | Linear Regression Fixed Point Clusters

## -- T --

tclustCBI | Interface functions for clustering methods
tdecomp | Root of singularity-corrected eigenvalue decomposition
tonedata | Tone perception data

## -- U --

unimodal.ind | Is a fitted denisity unimodal or not?

## -- V --

valstat.object | Cluster validation statistics - object

## -- W --

weightplots | Ordered posterior plots
wfu | Weight function (for Mahalabobis distances)

## -- X --

xtable | Partition crosstable with empty clusters

## -- Z --

zmisclassification.matrix | Matrix of misclassification probabilities between mixture components