iChip

Bayesian Modeling of ChIP-chip Data Through Hidden Ising Models

Bioconductor version: 2.8

This package uses hidden Ising models to identify enriched genomic regions in ChIP-chip data. It can be used to analyze the data from multiple platforms (e.g., Affymetrix, Agilent, and NimbleGen), and the data with single to multiple replicates.

Author: Qianxing Mo

Maintainer: Qianxing Mo <moq at mskcc.org>

To install this package, start R and enter:

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

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

    citation("iChip")

Documentation

PDF R Script iChip
PDF   Reference Manual

Details

biocViews ChIP-chip, NimbleGen, Microarray, Bioinformatics
Depends R (>= 2.10.0)
Imports limma
Suggests
System Requirements
License GPL (>= 2)
URL
Depends On Me
Imports Me
Suggests Me
Version 1.6.0
Since Bioconductor 2.6 (R-2.11)

Package Downloads

Package Source iChip_1.6.0.tar.gz
Windows Binary iChip_1.6.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary iChip_1.6.0.tgz
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