To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("VanillaICE")

In most cases, you don't need to download the package archive at all.

VanillaICE

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 jhsph.edu>, Kevin Scharpf, and Ingo Ruczinski <ingo at jhsph.edu>

Maintainer: Robert Scharpf <rscharpf at jhsph.edu>

Citation (from within R, enter citation("VanillaICE")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("VanillaICE")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("VanillaICE")

 

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

Details

biocViews CopyNumberVariants, Software
Version 1.26.1
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
URL
Depends On Me
Imports Me MinimumDistance
Suggests Me oligoClasses

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source VanillaICE_1.26.1.tar.gz
Windows Binary VanillaICE_1.26.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) VanillaICE_1.26.1.tgz
Mac OS X 10.9 (Mavericks) VanillaICE_1.26.1.tgz
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