A Hidden Markov Model for high throughput genotyping arrays

Bioconductor version: Release (2.14)

Hidden Markov Models for characterizing chromosomal alterations in high throughput SNP arrays

Author: Robert Scharpf <rscharpf at>, Kevin Scharpf, and Ingo Ruczinski <ingo at>

Maintainer: Robert Scharpf <rscharpf at>

To install this package, start R and enter:


To cite this package in a publication, start R and enter:



PDF R Script crlmmDownstream
PDF R Script VanillaICE Vignette
PDF   Reference Manual
Text   NEWS


biocViews CopyNumberVariants, Software
Version 1.26.0
In Bioconductor since BioC 2.1 (R-2.6)
License LGPL-2
Depends R (>= 3.0.0)
Imports stats, utils, methods, Biobase, oligoClasses(>= 1.21.12), lattice, IRanges(>= 1.13.22), grid, msm, iterators, foreach, GenomicRanges, matrixStats
Suggests genomewidesnp6Crlmm(>= 1.0.7), hapmapsnp6, RColorBrewer, genefilter, RSQLite, foreach, RUnit, pd.mapping50k.hind240, SNPchip(>= 2.5.7), doSNOW
System Requirements
Depends On Me
Imports Me MinimumDistance
Suggests Me oligoClasses

Package Downloads

Package Source VanillaICE_1.26.0.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) VanillaICE_1.26.0.tgz
Mac OS X 10.9 (Mavericks)
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center