apcluster: Affinity Propagation Clustering

Implements Affinity Propagation clustering introduced by Frey and Dueck (2007) <DOI:10.1126/science.1136800>. The algorithms are largely analogous to the 'Matlab' code published by Frey and Dueck. The package further provides leveraged affinity propagation and an algorithm for exemplar-based agglomerative clustering that can also be used to join clusters obtained from affinity propagation. Various plotting functions are available for analyzing clustering results.

AuthorUlrich Bodenhofer, Johannes Palme, Chrats Melkonian, Andreas Kothmeier
Date of publication2016-02-24 10:18:34
MaintainerUlrich Bodenhofer <bodenhofer@bioinf.jku.at>
LicenseGPL (>= 2)
Version1.4.3
http://www.bioinf.jku.at/software/apcluster/

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Files in this package

apcluster
apcluster/TODO
apcluster/inst
apcluster/inst/examples
apcluster/inst/examples/ch22Promoters.fasta
apcluster/inst/CITATION
apcluster/inst/doc
apcluster/inst/doc/apcluster.R
apcluster/inst/doc/apcluster.Rnw
apcluster/inst/doc/apcluster.pdf
apcluster/src
apcluster/src/preferenceRangeC.cpp
apcluster/src/preferenceRangeSparseC.cpp
apcluster/src/apclusterC.cpp
apcluster/src/apclusterLeveragedC.cpp
apcluster/src/apclusterSparseC.cpp
apcluster/src/distanceL.c
apcluster/NAMESPACE
apcluster/NEWS
apcluster/R
apcluster/R/AllClasses.R apcluster/R/AllGenerics.R apcluster/R/show-methods.R apcluster/R/apclusterK-methods.R apcluster/R/sort-methods.R apcluster/R/revDend.R apcluster/R/cutree-methods.R apcluster/R/apcluster-methods.R apcluster/R/heatmap-methods.R apcluster/R/simpleDist.R apcluster/R/labels-methods.R apcluster/R/access-methods.R apcluster/R/plot-methods.R apcluster/R/preferenceRange-methods.R apcluster/R/apclusterDemo.R apcluster/R/length-methods.R apcluster/R/aggExCluster-methods.R apcluster/R/similarity.R apcluster/R/coerce-methods.R apcluster/R/conversions.R apcluster/R/apclusterL-methods.R
apcluster/vignettes
apcluster/vignettes/bioinf-bar.png
apcluster/vignettes/apcluster.Rnw
apcluster/vignettes/bioinf-article.txi
apcluster/vignettes/bioinf.cls
apcluster/MD5
apcluster/build
apcluster/build/vignette.rds
apcluster/DESCRIPTION
apcluster/man
apcluster/man/conversions.Rd apcluster/man/heatmap-methods.Rd apcluster/man/APResult-class.Rd apcluster/man/plot-methods.Rd apcluster/man/ExClust-class.Rd apcluster/man/apclusterL-methods.Rd apcluster/man/apclusterK-methods.Rd apcluster/man/AggExResult-class.Rd apcluster/man/sort-methods.Rd apcluster/man/ch22Promoters.Rd apcluster/man/apclusterDemo.Rd apcluster/man/labels-methods.Rd apcluster/man/apcluster-methods.Rd apcluster/man/cutree-methods.Rd apcluster/man/coerce-methods.Rd apcluster/man/aggExCluster-methods.Rd apcluster/man/similarities.Rd apcluster/man/apcluster-package.Rd apcluster/man/show-methods.Rd apcluster/man/apcluster-deprecated.Rd apcluster/man/preferenceRange-methods.Rd

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