To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("csaw")

In most cases, you don't need to download the package archive at all.

csaw

This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see csaw.

ChIP-Seq Analysis with Windows

Bioconductor version: 3.3

Detection of differentially bound regions in ChIP-seq data with sliding windows, with methods for normalization and proper FDR control.

Author: Aaron Lun <alun at wehi.edu.au>, Gordon Smyth <smyth at wehi.edu.au>

Maintainer: Aaron Lun <alun at wehi.edu.au>

Citation (from within R, enter citation("csaw")):

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("csaw")

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("csaw")

biocViews	Annotation, ChIPSeq, Coverage, DifferentialPeakCalling, Genetics, MultipleComparison, Normalization, Sequencing, Software
Version	1.6.1
In Bioconductor since	BioC 3.0 (R-3.1) (2 years)
License	GPL-3
Depends	R (>= 3.3.0), GenomicRanges, SummarizedExperiment(>= 1.1.6)
Imports	Rsamtools, edgeR, limma, GenomicFeatures, AnnotationDbi, methods, S4Vectors, IRanges, GenomeInfoDb, BiocGenerics, Rhtslib, stats
LinkingTo	Rhtslib, zlibbioc
Suggests	org.Mm.eg.db, TxDb.Mmusculus.UCSC.mm10.knownGene
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	diffHic
Suggests Me
Build Report

Follow Installation instructions to use this package in your R session.

Package Source	csaw_1.6.1.tar.gz
Windows Binary	csaw_1.6.1.zip (32- & 64-bit)
Mac OS X 10.9 (Mavericks)	csaw_1.6.1.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/csaw/tree/release-3.3
Package Short Url	http://bioconductor.org/packages/csaw/
Package Downloads Report	Download Stats

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