To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("VanillaICE")

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

VanillaICE

This package is for version 2.9 of Bioconductor; for the stable, up-to-date release version, see VanillaICE.

A Hidden Markov Model for high throughput genotyping arrays

Bioconductor version: 2.9

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")):

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("VanillaICE")

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

browseVignettes("VanillaICE")

PDF		crlmmDownstream.pdf
PDF		VanillaICE-fig2.pdf
PDF		VanillaICE-fig3.pdf
PDF		VanillaICE-fig5.pdf
PDF		VanillaICE-integerCopynumber.pdf
PDF		VanillaICE-xyplot.pdf
PDF		VanillaICE-xyplotExample.pdf
PDF		VanillaICE.pdf
PDF		Reference Manual

biocViews	Bioinformatics, CopyNumberVariants, GeneticVariability, SNP, Software, Visualization
Version	1.16.1
In Bioconductor since	BioC 2.1 (R-2.6) (8.5 years)
License	LGPL-2
Depends	R (>= 2.13.0), IRanges, oligoClasses(>= 1.15.40), methods, stats
Imports	SNPchip(>= 1.15.0), stats, Biobase, lattice, utils, IRanges, grid
LinkingTo
Suggests	crlmm(>= 1.11.55), genomewidesnp6Crlmm, hapmapsnp6, RColorBrewer, genefilter, RSQLite
SystemRequirements
Enhances	HapmapCrlmmAffySet, DNAcopy, crlmm
URL
Depends On Me
Imports Me
Suggests Me	oligoClasses, SNPchip
Build Report

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

Package Source	VanillaICE_1.16.1.tar.gz
Windows Binary	VanillaICE_1.16.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks)
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/VanillaICE/tree/release-2.9
Package Short Url	http://bioconductor.org/packages/VanillaICE/
Package Downloads Report	Download Stats