msgbsR
This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see msgbsR.
msgbsR: methylation sensitive genotyping by sequencing (MS-GBS) R functions
Bioconductor version: 3.8
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 "3.5") 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 | 1.6.1 |
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_1.6.1.tar.gz |
Windows Binary | msgbsR_1.6.1.zip (32- & 64-bit) |
Mac OS X 10.11 (El Capitan) | msgbsR_1.6.1.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 3.8 | Source Archive |