To install this package, start R and enter:

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

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

chipseq

chipseq: A package for analyzing chipseq data

Bioconductor version: Release (2.14)

Tools for helping process short read data for chipseq experiments

Author: Deepayan Sarkar, Robert Gentleman, Michael Lawrence, Zizhen Yao

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("chipseq")

 

PDF R Script A Sample ChIP-Seq analysis workflow
PDF   Reference Manual

Details

biocViews ChIPSeq, Software
Version 1.14.0
In Bioconductor since BioC 2.5 (R-2.10)
License Artistic-2.0
Depends R (>= 2.10), methods, BiocGenerics(>= 0.1.0), IRanges(>= 1.13.4), GenomicRanges(>= 1.7.7), BSgenome, ShortRead
Imports methods, BiocGenerics, IRanges, BSgenome, GenomicRanges, lattice, ShortRead, stats
Suggests GenomicFeatures, TxDb.Mmusculus.UCSC.mm9.knownGene
System Requirements
URL
Depends On Me PING
Imports Me ChIPQC, HTSeqGenie
Suggests Me ggbio, oneChannelGUI

Package Archives

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

Package Source chipseq_1.14.0.tar.gz
Windows Binary chipseq_1.14.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) chipseq_1.14.0.tgz
Mac OS X 10.9 (Mavericks) chipseq_1.14.0.tgz
Browse/checkout source (username/password: readonly)
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