biclust: BiCluster Algorithms

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The main function biclust provides several algorithms to find biclusters in two-dimensional data: Cheng and Church, Spectral, Plaid Model, Xmotifs and Bimax. In addition, the package provides methods for data preprocessing (normalization and discretisation), visualisation, and validation of bicluster solutions.

Author
Sebastian Kaiser, Rodrigo Santamaria, Tatsiana Khamiakova, Martin Sill, Roberto Theron, Luis Quintales, Friedrich Leisch and Ewoud De Troyer.
Date of publication
2015-12-11 12:45:49
Maintainer
Sebastian Kaiser <Sebastian.Kaiser@stat.uni-muenchen.de>, Ewoud De Troyer <ewoud.detroyer@uhasselt.be>
License
GPL-3
Version
1.2.1

View on R-Forge

Man pages

BCPlaid
The Plaid Model Bicluster algorithm
BCSpectral
The Spectral Bicluster algorithm
BicatYeast
BicAT Yeast
bimax.grid
Parameter Grid for BCBimax Biclustering
binarize
Binarize
bubbleplot
Bubbleplot
ChiaKaruturi
Chia and Karuturi Function
coherence
Coherence measures
computeObservedFstat
Diagnostic F Statistic Calculation
diagnoseColRow
Bootstrap Procedure for Bicluster Diagnostics
diagnosticPlot
Diagnostic F Statistics Visualization
drawHeatmap
Draw Heatmap
EisenYeast
Eisen Yeast
ensemble
Ensemble Methods for Bicluster Algorithms
heatmapBC
Overlapping Heatmap
parallelCoordinates
Parallel Coordinates
plaid.grid
Parameter Grid for BCPlaid Biclustering
SyntrenEcoli
SynTReN E. coli
writeBiclusterResults
writeBiclusterResults

Files in this package

biclust/COPYING
biclust/DESCRIPTION
biclust/NAMESPACE
biclust/NEWS
biclust/R
biclust/R/DiagnosticsFunctions.R
biclust/R/aaa-biclust.r
biclust/R/biclustbarchart.r
biclust/R/bicluster.r
biclust/R/bicorder.r
biclust/R/bimax.r
biclust/R/binarize.r
biclust/R/bubbleplot.r
biclust/R/cc.r
biclust/R/clustmember.r
biclust/R/coherence.r
biclust/R/drawHeatmap.r
biclust/R/drawHeatmap2.r
biclust/R/ensemble.R
biclust/R/heatmap.r
biclust/R/helpers.r
biclust/R/isoverlapp.r
biclust/R/iterativekmeans.r
biclust/R/jaccard.r
biclust/R/logical2sparse.r
biclust/R/normalization.r
biclust/R/parallelCoordinates.r
biclust/R/plaid.r
biclust/R/postprocessing.r
biclust/R/predict.r
biclust/R/questmetmotif.r
biclust/R/questmotif.r
biclust/R/questordmotif.r
biclust/R/spectral.r
biclust/R/writeBiclusterResults.r
biclust/R/xmotif.r
biclust/data
biclust/data/BicatYeast.rda
biclust/data/EisenYeast.rda
biclust/data/SyntrenEcoli.rda
biclust/data/datalist
biclust/man
biclust/man/BCBimax.rd
biclust/man/BCCC.rd
biclust/man/BCPlaid.Rd
biclust/man/BCQuest.rd
biclust/man/BCSpectral.Rd
biclust/man/BCXmotifs.rd
biclust/man/BicatYeast.Rd
biclust/man/Biclust.rd
biclust/man/BiclustMethod.rd
biclust/man/ChiaKaruturi.Rd
biclust/man/EisenYeast.Rd
biclust/man/SyntrenEcoli.Rd
biclust/man/biclust-method.rd
biclust/man/biclustbarchart.rd
biclust/man/bicluster.rd
biclust/man/bimax.grid.Rd
biclust/man/binarize.Rd
biclust/man/bubbleplot.Rd
biclust/man/clustmember.rd
biclust/man/coherence.Rd
biclust/man/computeObservedFstat.Rd
biclust/man/diagnoseColRow.Rd
biclust/man/diagnosticPlot.Rd
biclust/man/discretize.rd
biclust/man/drawHeatmap.Rd
biclust/man/ensemble.Rd
biclust/man/heatmapBC.Rd
biclust/man/isoverlapp.rd
biclust/man/jaccard.rd
biclust/man/parallelCoordinates.Rd
biclust/man/plaid.grid.Rd
biclust/man/plotclust.rd
biclust/man/predict.rd
biclust/man/writeBiclusterResults.Rd
biclust/man/writeclust.rd
biclust/src
biclust/src/rbimax.c