ChIPseqR

Identifying Protein Binding Sites in High-Throughput Sequencing Data

Bioconductor version: 2.8

ChIPseqR identifies protein binding sites from ChIP-seq and nucleosome positioning experiments. The model used to describe binding events was developed to locate nucleosomes but should flexible enough to handle other types of experiments as well.

Author: Peter Humburg

Maintainer: Peter Humburg <peter.humburg at well.ox.ac.uk>

To install this package, start R and enter:

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

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

    citation("ChIPseqR")

Documentation

PDF R Script Introduction to ChIPseqR
PDF   Reference Manual

Details

biocViews ChIPseq, Bioinformatics, Infrastructure
Depends R (>= 2.10.0), ShortRead, methods
Imports Biostrings, fBasics, GenomicRanges, graphics, grDevices, HilbertVis, IRanges, methods, ShortRead, stats, timsac, utils
Suggests
System Requirements
License GPL (>= 2)
URL
Depends On Me
Imports Me
Suggests Me
Version 1.6.0
Since Bioconductor 2.5 (R-2.10)

Package Downloads

Package Source ChIPseqR_1.6.0.tar.gz
Windows Binary ChIPseqR_1.6.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary ChIPseqR_1.6.0.tgz
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