To install this package, start R and enter:

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

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

ChIPQC

This package is for version 3.1 of Bioconductor; for the stable, up-to-date release version, see ChIPQC.

Quality metrics for ChIPseq data

Bioconductor version: 3.1

Quality metrics for ChIPseq data

Author: Tom Carroll, Wei Liu, Ines de Santiago, Rory Stark

Maintainer: Tom Carroll <tc.infomatics at gmail.com>, Rory Stark <rory.stark at cruk.cam.ac.uk>

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

To install this package, start R and enter:

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

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

browseVignettes("ChIPQC")

PDF	R Script	Assessing ChIP-seq sample quality with ChIPQC
PDF		ChIPQCSampleReport.pdf
PDF		Reference Manual
Text		NEWS

biocViews	ChIPSeq, QualityControl, ReportWriting, Sequencing, Software
Version	1.4.4
In Bioconductor since	BioC 2.14 (R-3.1) (2 years)
License	GPL (>= 3)
Depends	R (>= 3.0.0), ggplot2, DiffBind, GenomicRanges(>= 1.17.19)
Imports	BiocGenerics(>= 0.11.3), S4Vectors(>= 0.1.0), IRanges(>= 1.99.17), Rsamtools(>= 1.17.28), GenomicAlignments(>= 1.1.16), chipseq(>= 1.12.0), gtools, BiocParallel, methods, reshape2, Nozzle.R1, Biobase, grDevices, stats, utils
LinkingTo
Suggests	BiocStyle, TxDb.Hsapiens.UCSC.hg19.knownGene, TxDb.Hsapiens.UCSC.hg18.knownGene, TxDb.Mmusculus.UCSC.mm10.knownGene, TxDb.Mmusculus.UCSC.mm9.knownGene, TxDb.Rnorvegicus.UCSC.rn4.ensGene, TxDb.Celegans.UCSC.ce6.ensGene, TxDb.Dmelanogaster.UCSC.dm3.ensGene, TxDb.Hsapiens.UCSC.hg38.knownGene
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report

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

Package Source	ChIPQC_1.4.4.tar.gz
Windows Binary	ChIPQC_1.4.4.zip
Mac OS X 10.6 (Snow Leopard)	ChIPQC_1.4.4.tgz
Mac OS X 10.9 (Mavericks)	ChIPQC_1.4.4.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/ChIPQC/tree/release-3.1
Package Short Url	http://bioconductor.org/packages/ChIPQC/
Package Downloads Report	Download Stats

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