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fpc (version 2.1-11.1)

Flexible Procedures for Clustering

Description

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. 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.

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Version

Install

install.packages('fpc')

Monthly Downloads

19,476

Version

2.1-11.1

License

GPL

Maintainer

ORPHANED

Last Published

July 20th, 2018

Functions in fpc (2.1-11.1)

cat2bin

Recode nominal variables to binary variables
cluster.stats

Cluster validation statistics
calinhara

Calinski-Harabasz index
cluster.varstats

Variablewise statistics for clusters
cmahal

Generation of tuning constant for Mahalanobis fixed point clusters.
clusterboot

Clusterwise cluster stability assessment by resampling
cweight

Weight function for AWC
can

Generation of the tuning constant for regression fixed point clusters
dbscan

DBSCAN density reachability and connectivity clustering
fixreg

Linear Regression Fixed Point Clusters
flexmixedruns

Fitting mixed Gaussian/multinomial mixtures with flexmix
adcoord

Asymmetric discriminant coordinates
dudahart2

Duda-Hart test for splitting
ancoord

Asymmetric neighborhood based discriminant coordinates
awcoord

Asymmetric weighted discriminant coordinates
batcoord

Bhattacharyya discriminant projection
discrcoord

Discriminant coordinates/canonical variates
classifdist

Classification of unclustered points
extract.mixturepars

Extract parameters for certain components from mclust
kmeansCBI

Interface functions for clustering methods
confusion

Misclassification probabilities in mixtures
con.comp

Connectivity components of an undirected graph
dipp.tantrum

Simulates p-value for dip test
discrete.recode

Recodes mixed variables dataset
clucols

Sets of colours and symbols for cluster plotting
kmeansruns

k-means with estimating k and initialisations
discrproj

Linear dimension reduction for classification
distcritmulti

Distance based validity criteria for large data sets
distancefactor

Factor for dissimilarity of mixed type data
dridgeline

Density along the ridgeline
diptest.multi

Diptest for discriminant coordinate projection
fpc-package

fpc package overview
neginc

Neg-entropy normality index for cluster validation
fpclusters

Extracting clusters from fixed point cluster objects
nselectboot

Selection of the number of clusters via bootstrap
mahalconf

Mahalanobis fixed point clusters initial configuration
itnumber

Number of regression fixed point cluster iterations
jittervar

Jitter variables in a data matrix
lcmixed

flexmix method for mixed Gaussian/multinomial mixtures
mvdcoord

Mean/variance differences discriminant coordinates
piridge.zeroes

Extrema of two-component Gaussian mixture
localshape

Local shape matrix
ncoord

Neighborhood based discriminant coordinates
plotcluster

Discriminant projection plot.
wfu

Weight function (for Mahalabobis distances)
randcmatrix

Random partition matrix
mixdens

Density of multivariate Gaussian mixture, mclust parameterisation
mergenormals

Clustering by merging Gaussian mixture components
xtable

Partition crosstable with empty clusters
randconf

Generate a sample indicator vector
pamk

Partitioning around medoids with estimation of number of clusters
zmisclassification.matrix

Matrix of misclassification probabilities between mixture components
piridge

Ridgeline Pi-function
bhattacharyya.dist

Bhattacharyya distance between Gaussian distributions
bhattacharyya.matrix

Matrix of pairwise Bhattacharyya distances
clujaccard

Jaccard similarity between logical vectors
mixpredictive

Prediction strength of merged Gaussian mixture
clusexpect

Expected value of the number of times a fixed point cluster is found
cvnn

Cluster validation based on nearest neighbours
cov.wml

Weighted Covariance Matrices (Maximum Likelihood)
findrep

Finding representatives for cluster border
fixmahal

Mahalanobis Fixed Point Clusters
prediction.strength

Prediction strength for estimating number of clusters
ridgeline.diagnosis

Ridgeline plots, ratios and unimodality
simmatrix

Extracting intersections between clusters from fpc-object
solvecov

Inversion of (possibly singular) symmetric matrices
sseg

Position in a similarity vector
rFace

"Face-shaped" clustered benchmark datasets
unimodal.ind

Is a fitted denisity unimodal or not?
mahalanofix

Mahalanobis distances from center of indexed points
mahalanodisc

Mahalanobis for AWC
weightplots

Ordered posterior plots
mergeparameters

New parameters from merging two Gaussian mixture components
minsize

Minimum size of regression fixed point cluster
regmix

Mixture Model ML for Clusterwise Linear Regression
tdecomp

Root of singularity-corrected eigenvalue decomposition
ridgeline

Ridgeline computation
tonedata

Tone perception data
cdbw

CDbw-index for cluster validation