seqRdna
This is the development version of seqRdna; to use it, please install the devel version of Bioconductor.
Tools for Calculating for rDNA in Sequencing Data
Bioconductor version: Development (3.24)
Functions for working with rDNA data generated from sequencing experiments. The package includes functions to calculate the relative rDNA copy number from coverage data, as well as functions to calculate the absolute rDNA copy number using methylation data.
Author: Daniel Vaughan [aut, cre] 
, Medical Research Council (MRC) [fnd]
Maintainer: Daniel Vaughan <daniel.1.vaughan at kcl.ac.uk>
citation("seqRdna")):Daniel Vaughan. seqRdna: Tools for Calculating for rDNA in Sequencing Data. doi:10.18129/B9.bioc.seqRdna, R package version 0.99.5, https://bioconductor.org/packages/seqRdna.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("seqRdna")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("seqRdna")| Introduction to seqRdna | HTML |
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | CopyNumberVariation, Coverage, DNAMethylation, Epigenetics, Sequencing, Software |
| Version | 0.99.5 |
| In Bioconductor since | BioC 3.24 (R-4.6) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.5.0) |
| Imports | methylKit, GenomicRanges, IRanges, S4Vectors, methods, glmmTMB |
| System Requirements | |
| URL | https://github.com/MuscleOmicsLab/seqRdna |
| Bug Reports | https://github.com/MuscleOmicsLab/seqRdna/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/seqRdna |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/seqRdna |
| Package Short Url | https://bioconductor.org/packages/seqRdna/ |
| Package Downloads Report | Download Stats |