iClusterPlus: Integrative clustering of multi-type genomic data
Version 1.12.1

Integrative clustering of multiple genomic data using a joint latent variable model

Browse man pages Browse package API and functions Browse package files

AuthorQianxing Mo, Ronglai Shen
Bioconductor views Clustering Microarray
Date of publicationNone
MaintainerQianxing Mo <qmo@bcm.edu>, Ronglai Shen <shenr@mskcc.org>
LicenseGPL (>= 2)
Version1.12.1
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("iClusterPlus")

Man pages

breast.chr17: Breast cancer data set DNA copy number and mRNA expression...
CNregions: A function to remove redundant copy number regions
compute.pod: A function to compute the proportion of deviation from...
coord: genomic coordinates
gbm: GBM data
glp: good lattice points using the uniform design
iCluster: Integrative clustering of multiple genomic data types
iCluster2: Integrative clustering of multiple genomic data types
iClusterPlus: Integrative clustering of multiple genomic data types
plotHeatmap: A function to generate heatmap panels sorted by integrated...
plotiCluster: A function to generate cluster separability matrix plot.
plotRI: A function to generate reproducibility index plot.
simuResult: The results for the analysis of the simulated data.
tune.iCluster2: Integrative clustering of multiple genomic data types
tune.iClusterPlus: Integrative clustering of multiple genomic data
utility: Utility functions for iClusterPlus package
variation.hg18.v10.nov.2010: Human genome variants of the NCBI 36 (hg18) assembly

Functions

CNregions Man page Source code
RandIndex Source code
aRandIndex Source code
breast.chr17 Man page
classError Source code
compute.pod Man page Source code
coord Man page
dataType Source code
dev.ratio Source code
gbm.exp Man page
gbm.mut Man page
gbm.seg Man page
getBIC Man page Source code
getClusters Man page Source code
getDevR Man page Source code
glp Man page
iCluster Man page Source code
iCluster2 Man page Source code
iClusterPlus Man page Source code
iManual Man page Source code
mcmcMix Source code
plotHeatmap Man page Source code
plotRI Man page Source code
plotiCluster Man page Source code
predict.kmeans Source code
simuResult Man page
soft Source code
totalBIC Source code
tune.iCluster2 Man page Source code
tune.iClusterPlus Man page Source code
variation.hg18.v10.nov.2010 Man page

Files

DESCRIPTION
NAMESPACE
R
R/CNregions.R
R/compute.pod.R
R/iCluster.R
R/iCluster2.R
R/iClusterPlus.R
R/plotHeatmap.R
R/plotRI.R
R/plotiCluster.R
R/tune.iCluster2.R
R/tune.iClusterPlus.R
R/utility.R
build
build/vignette.rds
cleanup
configure
configure.in
data
data/breast.chr17.rda
data/coord.rda
data/datalist
data/gbm.rda
data/glp.rda
data/simuResult.rda
data/variation.hg18.v10.nov.2010.rda
demo
demo/00Index
demo/demo.R
demo/iCluster.demo.R
inst
inst/NEWS
inst/doc
inst/doc/iClusterPlus.Rnw
inst/doc/iClusterPlus.pdf
inst/doc/iManual.pdf
inst/unitTests
inst/unitTests/test_iClusterPlus.R
man
man/CNregions.Rd
man/breast.chr17.Rd
man/compute.pod.Rd
man/coord.Rd
man/gbm.Rd
man/glp.Rd
man/iCluster.Rd
man/iCluster2.Rd
man/iClusterPlus.Rd
man/plotHeatmap.Rd
man/plotRI.Rd
man/plotiCluster.Rd
man/simuResult.Rd
man/tune.iCluster2.Rd
man/tune.iClusterPlus.Rd
man/utility.Rd
man/variation.hg18.v10.nov.2010.Rd
src
src/Makevars.in
src/Makevars.win
src/iClusterPlus.c
src/newGLMnet.f90
tests
tests/runTests.R
vignettes
vignettes/iClusterPlus.Rnw
iClusterPlus documentation built on May 20, 2017, 10:14 p.m.