Bioconductor version: Release (3.11)
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")
):
To install this package, start R (version "4.0") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("DiffBind")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DiffBind")
R Script | DiffBind: Differential binding analysis of ChIP-Seq peak data | |
Reference Manual | ||
Text | NEWS |
biocViews | ChIPSeq, DifferentialPeakCalling, Sequencing, Software |
Version | 2.16.2 |
In Bioconductor since | BioC 2.9 (R-2.14) (9 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 |
SystemRequirements | GNU make |
Enhances | rgl, XLConnect |
URL | |
Depends On Me | ChIPQC, vulcan |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | DiffBind_2.16.2.tar.gz |
Windows Binary | DiffBind_2.16.2.zip (32- & 64-bit) |
macOS 10.13 (High Sierra) | DiffBind_2.16.2.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/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.11 | Source Archive |
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