DOI: 10.18129/B9.bioc.csaw    

This is the development version of csaw; for the stable release version, see csaw.

ChIP-Seq Analysis with Windows

Bioconductor version: Development (3.8)

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>

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PDF csaw Vignette
PDF csawUserGuide.pdf
PDF   Reference Manual
Text   NEWS


biocViews Annotation, ChIPSeq, Coverage, DifferentialPeakCalling, Genetics, MultipleComparison, Normalization, Sequencing, Software
Version 1.15.1
In Bioconductor since BioC 3.0 (R-3.1) (3.5 years)
License GPL-3
Depends R (>= 3.5), GenomicRanges, SummarizedExperiment, BiocParallel
Imports Rsamtools, edgeR, limma, GenomicFeatures, AnnotationDbi, methods, S4Vectors, IRanges, GenomeInfoDb, Rhtslib, stats, Rcpp
LinkingTo Rhtslib, zlibbioc, Rcpp
Suggests org.Mm.eg.db, TxDb.Mmusculus.UCSC.mm10.knownGene
SystemRequirements C++11
Depends On Me chipseqDB
Imports Me diffHic, NADfinder, vulcan
Suggests Me
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Source Package csaw_1.15.1.tar.gz
Windows Binary csaw_1.15.1.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) csaw_1.15.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/csaw
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/csaw
Package Short Url http://bioconductor.org/packages/csaw/
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