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 3.4 of Bioconductor; for the stable, up-to-date release version, see ChIPQC.

Quality metrics for ChIPseq data

Bioconductor version: 3.4

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	1.10.3
In Bioconductor since	BioC 2.14 (R-3.1) (3 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, GenomicFeatures, TxDb.Hsapiens.UCSC.hg19.knownGene, TxDb.Hsapiens.UCSC.hg18.knownGene, TxDb.Mmusculus.UCSC.mm10.knownGene, TxDb.Mmusculus.UCSC.mm9.knownGene, TxDb.Hsapiens.UCSC.hg38.knownGene, TxDb.Rnorvegicus.UCSC.rn4.ensGene, TxDb.Celegans.UCSC.ce6.ensGene, TxDb.Dmelanogaster.UCSC.dm3.ensGene
LinkingTo
Suggests	BiocStyle
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_1.10.3.tar.gz
Windows Binary	ChIPQC_1.10.3.zip
Mac OS X 10.9 (Mavericks)	ChIPQC_1.10.3.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/ChIPQC/tree/release-3.4
Package Short Url	http://bioconductor.org/packages/ChIPQC/
Package Downloads Report	Download Stats

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