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Biclust R package

Installation

Release (1.2.0)

install.packages("biclust")

Development (2.0.0)

install.packages("devtools") # If not yet installed on your R Version
devtools::install_github("Biclustering/biclust")

Description

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.

Example

data(BicatYeast)
res<-biclust(BicatYeast, method=BCPlaid(), verbose=FALSE)
res

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Version

Install

install.packages('biclust')

Monthly Downloads

92

Version

2.0.1

License

GPL-3

Maintainer

ORPHANED

Last Published

June 9th, 2018

Functions in biclust (2.0.1)

biclustbarchart

Bicluster Barchart
computeObservedFstat

Diagnostic F Statistic Calculation
bimax.grid

Parameter Grid for BCBimax Biclustering
diagnosticPlot

Diagnostic F Statistics Visualization
diagnosticPlot2

Diagnostics F Statistiics Visualization
plotclust

Barplot of Bicluster
diagnoseColRow

Bootstrap Procedure for Bicluster Diagnostics
bubbleplot

Bubbleplot
predictBimax

Predict from a BCrepBimax Result
coherence

Coherence measures
heatmapBC

Overlapping Heatmap
isoverlapp

Is Bicresult overlapping?
writeBiclusterResults

writeBiclusterResults
ensemble

Ensemble Methods for Bicluster Algorithms
parallelCoordinates

Parallel Coordinates
writeclust

Write a Bicluster as a Cluster Result
plaid.grid

Parameter Grid for BCPlaid Biclustering
drawHeatmap

Draw Heatmap
Biclust-class

The Biclust Class
BCCC

The CC Bicluster algorithm
BCQuest

The Questmotif Bicluster algorithm
BCXmotifs

The Xmotifs Bicluster algorithm
binarize

Binarize
SyntrenEcoli

SynTReN E. coli
EisenYeast

Eisen Yeast
ChiaKaruturi

Chia and Karuturi Function
BCPlaid

The Plaid Model Bicluster algorithm
BCSpectral

The Spectral Bicluster algorithm
BCBimax

The Bimax Bicluster algorithm
BicatYeast

BicAT Yeast
BiclustMethod-class

The BiclustMethod Virtual Class
bicluster

Extract Bilcuster
biclust

The biclust Method
biclustmember

Bicluster Membership Graph
diagnosticTest

Testing Procedure for Bicluster Diagnostics
discretize

Create a discret matrix