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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("DiffBind")
In most cases, you don't need to download the package archive at all.
DiffBind
|
Differential Binding Analysis of ChIP-Seq peak data
Bioconductor version: 3.2
Compute differentially bound sites from multiple ChIP-seq experiments using affinity (quantitative) data. Also enables occupancy (overlap) analysis and plotting functions.
Author: Rory Stark<rory.stark at cruk.cam.ac.uk>, Gord Brown <gdbzork at gmail.com>
Maintainer: Rory Stark<rory.stark at cruk.cam.ac.uk>
Citation (from within R,
enter citation("DiffBind")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("DiffBind")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DiffBind")
| DiffBind: Differential binding analysis of ChIP-Seq peak data | ||
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | ChIPSeq, DifferentialPeakCalling, Sequencing, Software |
| Version | 1.16.3 |
| In Bioconductor since | BioC 2.9 (R-2.14) (4.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.2.2), GenomicRanges, SummarizedExperiment, limma, GenomicAlignments, locfit |
| Imports | RColorBrewer, amap, edgeR, gplots, grDevices, stats, utils, IRanges, zlibbioc, lattice, systemPipeR, tools |
| LinkingTo | Rsamtools(>= 1.19.38) |
| Suggests | DESeq, Rsamtools, DESeq2, BiocStyle |
| SystemRequirements | |
| Enhances | rgl, parallel, BiocParallel, XLConnect |
| URL | |
| Depends On Me | ChIPQC, MMDiff |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | DiffBind_1.16.3.tar.gz |
| Windows Binary | DiffBind_1.16.3.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | DiffBind_1.16.0.tgz |
| Mac OS X 10.9 (Mavericks) | DiffBind_1.16.3.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/DiffBind/tree/release-3.2 |
| Package Short Url | http://bioconductor.org/packages/DiffBind/ |
| Package Downloads Report | Download Stats |
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