msgbsR
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see msgbsR.
msgbsR: methylation sensitive genotyping by sequencing (MS-GBS) R functions
Bioconductor version: 3.9
Pipeline for the anaysis of a MS-GBS experiment.
Author: Benjamin Mayne
Maintainer: Benjamin Mayne <benjamin.mayne at adelaide.edu.au>
Citation (from within R, enter
citation("msgbsR")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("msgbsR")
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("msgbsR")| msgbsR_Example | R Script | |
| Reference Manual |
Details
| biocViews | DataImport, DifferentialMethylation, Epigenetics, ImmunoOncology, MethylSeq, Software |
| Version | 1.8.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7 years) |
| License | GPL-2 |
| Depends | R (>= 3.4), GenomicRanges, methods |
| Imports | BSgenome, easyRNASeq, edgeR, GenomicAlignments, GenomicFeatures, GenomeInfoDb, ggbio, ggplot2, IRanges, parallel, plyr, Rsamtools, R.utils, stats, SummarizedExperiment, S4Vectors, utils |
| System Requirements | |
| URL |
See More
| Suggests | roxygen2, BSgenome.Rnorvegicus.UCSC.rn6 |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | msgbsR_1.8.0.tar.gz |
| Windows Binary | msgbsR_1.8.0.zip |
| Mac OS X 10.11 (El Capitan) | msgbsR_1.8.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/msgbsR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/msgbsR |
| Bioc Package Browser | https://code.bioconductor.org/browse/msgbsR/ |
| Package Short Url | https://bioconductor.org/packages/msgbsR/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |