ChIPexoQual

This is the released version of ChIPexoQual; for the devel version, see ChIPexoQual.

Bioconductor version: Release (3.22)

Package with a quality control pipeline for ChIP-exo/nexus data.

Author: Rene Welch, Dongjun Chung, Sunduz Keles

Maintainer: Rene Welch <welch at stat.wisc.edu>

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

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("ChIPexoQual")

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("ChIPexoQual")

Vignette Title HTML R Script

Reference Manual PDF

NEWS Text

Version 1.34.0

In Bioconductor since BioC 3.5 (R-3.4) (8.5 years)

License GPL (>=2)

Depends R (>= 3.5.0), GenomicAlignments(>= 1.45.1)

Imports methods, utils, Seqinfo, stats, BiocParallel, GenomicRanges(>= 1.61.1), ggplot2 (>= 1.0), data.table (>= 1.9.6), Rsamtools(>= 2.25.1), IRanges(>= 1.6), S4Vectors(>= 0.8), biovizBase(>= 1.18), broom (>= 0.4), RColorBrewer (>= 1.1), dplyr (>= 0.5), scales (>= 0.4.0), viridis (>= 0.3), hexbin (>= 1.27), rmarkdown

System Requirements

Suggests ChIPexoQualExample(>= 0.99.1), knitr (>= 1.10), BiocStyle, gridExtra (>= 2.2), testthat

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

Windows Binary (x86_64) ChIPexoQual_1.34.0.zip

macOS Binary (x86_64) ChIPexoQual_1.34.0.tgz

macOS Binary (arm64) ChIPexoQual_1.34.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/ChIPexoQual

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ChIPexoQual

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