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Bioconductor - ChIPexoQual (development version)

ChIPexoQual

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

ChIPexoQual

Bioconductor version: Development (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")): Installation

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


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("ChIPexoQual")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("ChIPexoQual")
Details biocViews Alignment, ChIPSeq, Coverage, QualityControl, Sequencing, Software, Transcription, Visualization Version 1.33.1 In Bioconductor since BioC 3.5 (R-3.4) (8 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 URL https:github.com/keleslab/ChIPexoQual Bug Reports https://github.com/welch16/ChIPexoQual/issues See More Package Archives

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

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