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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("BayesPeak")
In most cases, you don't need to download the package archive at all.
BayesPeak
Bayesian Analysis of ChIP-seq Data
Bioconductor version: 3.0
This package is an implementation of the BayesPeak algorithm for peak-calling in ChIP-seq data.
Author: Christiana Spyrou, Jonathan Cairns, Rory Stark, Andy Lynch, Simon Tavar\\'{e},
Maintainer: Jonathan Cairns <jonathan.cairns at babraham.ac.uk>
Citation (from within R,
enter citation("BayesPeak")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("BayesPeak")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("BayesPeak")
| R Script | BayesPeak Vignette | |
| Reference Manual |
Details
| biocViews | ChIPSeq, Software |
| Version | 1.18.2 |
| In Bioconductor since | BioC 2.6 (R-2.11) |
| License | GPL (>= 2) |
| Depends | R (>= 2.14), IRanges |
| Imports | IRanges, graphics |
| LinkingTo | |
| Suggests | BiocStyle, parallel |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | BayesPeak_1.18.2.tar.gz |
| Windows Binary | BayesPeak_1.18.2.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | BayesPeak_1.18.2.tgz |
| Mac OS X 10.9 (Mavericks) | BayesPeak_1.18.2.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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