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ChIPseqR
Identifying Protein Binding Sites in High-Throughput Sequencing Data
Bioconductor version: 2.9
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
| R Script | Introduction to ChIPseqR | |
| 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 | 1.8.0 |
| Since | Bioconductor 2.5 (R-2.10) |
Package Downloads
| Package Source | ChIPseqR_1.8.0.tar.gz |
| Windows Binary | ChIPseqR_1.8.0.zip (32- & 64-bit) |
| MacOS 10.5 (Leopard) binary | ChIPseqR_1.8.0.tgz |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Annotation
- Variants
- Flow Cytometry and other assays
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