ChIPexoQual
ChIPexoQual
Bioconductor version: 3.24 · Package version: 1.37.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
Package with a quality control pipeline for ChIP-exo/nexus data.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ChIPexoQual")Details
| Maintainer | Rene Welch <welch@stat.wisc.edu> |
| Author | Rene Welch, Dongjun Chung, Sunduz Keles |
| License | GPL (>=2) |
| URL | https:github.com/keleslab/ChIPexoQual |
| Bug Reports | https://github.com/welch16/ChIPexoQual/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Alignment, ChIPSeq, Coverage, QualityControl, Sequencing, Software, Transcription, Visualization |
| Package Short Url | https://bioconductor.org/packages/ChIPexoQual/ |
Citation
From within R, enter citation("ChIPexoQual"):
Rene Welch, Dongjun Chung, Sunduz Keles. ChIPexoQual: ChIPexoQual. doi:10.18129/B9.bioc.ChIPexoQual, R package version 1.37.0, https://bioconductor.org/packages/ChIPexoQual.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | ChIPexoQual_1.37.0.tar.gz |
| Windows binary (x86_64) | ChIPexoQual_1.37.0.zip |
| macOS binary (arm64) | ChIPexoQual_1.37.0.tgz |
| macOS binary (x86_64) | ChIPexoQual_1.37.0.tgz |
Dependencies
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
Suggests: ChIPexoQualExample (>= 0.99.1), knitr (>= 1.10), BiocStyle, gridExtra (>= 2.2), testthat