DOI: 10.18129/B9.bioc.DiffBind    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see DiffBind.

Differential Binding Analysis of ChIP-Seq Peak Data

Bioconductor version: 3.9

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")):


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PDF R Script DiffBind: Differential binding analysis of ChIP-Seq peak data
PDF   Reference Manual
Text   NEWS


biocViews ChIPSeq, DifferentialPeakCalling, Sequencing, Software
Version 2.12.0
In Bioconductor since BioC 2.9 (R-2.14) (8 years)
License Artistic-2.0
Depends R (>= 3.5), GenomicRanges, SummarizedExperiment
Imports RColorBrewer, amap, edgeR, gplots, grDevices, limma, GenomicAlignments, locfit, stats, utils, IRanges, lattice, systemPipeR, tools, Rcpp, dplyr, ggplot2, BiocParallel, parallel, S4Vectors, Rsamtools(>= 1.99.1), DESeq2, methods, graphics, ggrepel
LinkingTo Rhtslib(>= 1.15.3), Rcpp
Suggests DESeq, BiocStyle, testthat
Enhances rgl, XLConnect
Depends On Me ChIPQC, vulcan
Imports Me
Suggests Me
Links To Me
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Source Package DiffBind_2.12.0.tar.gz
Windows Binary DiffBind_2.12.0.zip
Mac OS X 10.11 (El Capitan) DiffBind_2.12.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/DiffBind
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DiffBind
Package Short Url https://bioconductor.org/packages/DiffBind/
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