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chipseq
chipseq: A package for analyzing chipseq data
Bioconductor version: Release (2.9)
Tools for helping process short read data for chipseq experiments
Author: Deepayan Sarkar, Robert Gentleman, Michael Lawrence, Zizhen Yao
Maintainer: Bioconductor Package Maintainer
To install this package, start R and enter:
source("http:///biocLite.R")
biocLite("chipseq")
To cite this package in a publication, start R and enter:
citation("chipseq")
Documentation
| R Script | A Sample ChIP-Seq analysis workflow | |
| Reference Manual |
Details
| biocViews | ChIPseq |
| Depends | R, methods, IRanges, GenomicRanges, BSgenome, ShortRead |
| Imports | BSgenome, GenomicRanges, IRanges, lattice, methods, ShortRead, stats |
| Suggests | GenomicFeatures, BSgenome.Mmusculus.UCSC.mm9, TxDb.Mmusculus.UCSC.mm9.knownGene |
| System Requirements | |
| License | Artistic-2.0 |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | oneChannelGUI |
| Version | 1.4.0 |
| Since | Bioconductor 2.5 (R-2.10) |
Package Downloads
| Package Source | chipseq_1.4.0.tar.gz |
| Windows Binary | chipseq_1.4.0.zip (32- & 64-bit) |
| MacOS 10.5 (Leopard) binary | chipseq_1.4.0.tgz |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Annotation
- Flow Cytometry and other assays
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