iChip

DOI: 10.18129/B9.bioc.iChip    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see iChip.

Bayesian Modeling of ChIP-chip Data Through Hidden Ising Models

Bioconductor version: 3.10

Hidden Ising models are implemented to identify enriched genomic regions in ChIP-chip data. They 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 <qianxing.mo at moffitt.org>

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

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("iChip")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("iChip")

 

PDF R Script iChip
PDF   Reference Manual

Details

biocViews AgilentChip, ChIPchip, Microarray, OneChannel, Software
Version 1.40.0
In Bioconductor since BioC 2.6 (R-2.11) (10 years)
License GPL (>= 2)
Depends R (>= 2.10.0)
Imports limma
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package iChip_1.40.0.tar.gz
Windows Binary iChip_1.40.0.zip
Mac OS X 10.11 (El Capitan) iChip_1.40.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/iChip
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/iChip
Package Short Url https://bioconductor.org/packages/iChip/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: