CLAG: An unsupervised non hierarchical clustering algorithm handling biological data

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CLAG (for CLusters AGgregation) is an unsupervised non hierarchical clustering algorithm designed to cluster a large variety of biological data and to provide a clustered matrix and numerical values indicating cluster strength. CLAG clusterizes correlation matrices for residues in protein families, gene-expression and miRNA data related to various cancer types, sets of species described by multidimensional vectors of characters, binary matrices. It does not ask to all data points to cluster and it converges yielding the same result at each run. Its simplicity and speed allows it to run on reasonably large datasets.

Author
Linda DIB, Raphael CHAMPEIMONT, Alessandra CARBONE
Date of publication
2013-09-13 08:48:03
Maintainer
Raphael CHAMPEIMONT <raphael.champeimont@upmc.fr>
License
BSD_2_clause + file LICENSE | GPL (>= 2)
Version
2.18.1
URLs

View on R-Forge

Man pages

BREAST
Example data set provided with CLAG (breast)
CLAG.clust
Run cluster analysis with CLAG
compareClusterings
Compare two clusterings of the same elements (and print...
DIM128
Example data set provided with CLAG (DIM128)
DIM128_subset
Example data set provided with CLAG (DIM128 subset)
GLOBINE
Example data set provided with CLAG (globine)
mapClusterings
Compare two clusterings of the same elements

Files in this package

CLAG/DESCRIPTION
CLAG/LICENSE
CLAG/NAMESPACE
CLAG/NEWS
CLAG/R
CLAG/R/CLAG.R
CLAG/R/CLAG_compareclust.R
CLAG/build
CLAG/build/vignette.rds
CLAG/data
CLAG/data/BREAST.rda
CLAG/data/DIM128.rda
CLAG/data/DIM128_subset.rda
CLAG/data/GLOBINE.rda
CLAG/inst
CLAG/inst/Perl
CLAG/inst/Perl/TOOLCLAG-minimal
CLAG/inst/Perl/TOOLCLAG-minimal/AnyMatrix
CLAG/inst/Perl/TOOLCLAG-minimal/AnyMatrix/1-CoEvScoring.pl
CLAG/inst/Perl/TOOLCLAG-minimal/AnyMatrix/2-MatrixNONClusterized.pl
CLAG/inst/Perl/TOOLCLAG-minimal/AnyMatrix/3-MatrixClusterized.pl
CLAG/inst/Perl/TOOLCLAG-minimal/AnyMatrix/3-MatrixClusterizedAggregation.pl
CLAG/inst/Perl/TOOLCLAG-minimal/AnyMatrix/4-MatrixClusterizedParam.pl
CLAG/inst/Perl/TOOLCLAG-minimal/AnyMatrix/5-CallNeato.pl
CLAG/inst/Perl/TOOLCLAG-minimal/AnyMatrix/Aggregation.pl
CLAG/inst/Perl/TOOLCLAG-minimal/AnyMatrix/exe-RCommand.pl
CLAG/inst/Perl/TOOLCLAG-minimal/Binary
CLAG/inst/Perl/TOOLCLAG-minimal/Binary/1-CoEvScoring.pl
CLAG/inst/Perl/TOOLCLAG-minimal/Binary/2-MatrixNONClusterized.pl
CLAG/inst/Perl/TOOLCLAG-minimal/Binary/3-MatrixClusterized.pl
CLAG/inst/Perl/TOOLCLAG-minimal/Binary/3-MatrixClusterizedAggregation.pl
CLAG/inst/Perl/TOOLCLAG-minimal/Binary/4-MatrixClusterizedParam.pl
CLAG/inst/Perl/TOOLCLAG-minimal/Binary/5-CallNeato.pl
CLAG/inst/Perl/TOOLCLAG-minimal/Binary/Aggregation.pl
CLAG/inst/Perl/TOOLCLAG-minimal/Binary/exe-RCommand.pl
CLAG/inst/Perl/TOOLCLAG-minimal/LICENSE.txt
CLAG/inst/Perl/TOOLCLAG-minimal/README.txt
CLAG/inst/Perl/TOOLCLAG-minimal/SPECIFIC
CLAG/inst/Perl/TOOLCLAG-minimal/SPECIFIC/1-CoEvScoring.pl
CLAG/inst/Perl/TOOLCLAG-minimal/SPECIFIC/2-MatrixNONClusterized.pl
CLAG/inst/Perl/TOOLCLAG-minimal/SPECIFIC/3-MatrixClusterized.pl
CLAG/inst/Perl/TOOLCLAG-minimal/SPECIFIC/3-MatrixClusterizedAggregation.pl
CLAG/inst/Perl/TOOLCLAG-minimal/SPECIFIC/4-MatrixClusterizedParam.pl
CLAG/inst/Perl/TOOLCLAG-minimal/SPECIFIC/5-CallNeato.pl
CLAG/inst/Perl/TOOLCLAG-minimal/SPECIFIC/Aggregation.pl
CLAG/inst/Perl/TOOLCLAG-minimal/SPECIFIC/exe-RCommand.pl
CLAG/inst/Perl/TOOLCLAG-minimal/exe-RCommand.pl
CLAG/inst/doc
CLAG/inst/doc/CLAG-tutorial.R
CLAG/inst/doc/CLAG-tutorial.Rnw
CLAG/inst/doc/CLAG-tutorial.pdf
CLAG/man
CLAG/man/BREAST.Rd
CLAG/man/CLAG.clust.Rd
CLAG/man/DIM128.Rd
CLAG/man/DIM128_subset.Rd
CLAG/man/GLOBINE.Rd
CLAG/man/compareClusterings.Rd
CLAG/man/mapClusterings.Rd
CLAG/vignettes
CLAG/vignettes/CLAG-tutorial.Rnw
CLAG/vignettes/CLAG.bib