MethylSeekR

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see MethylSeekR.

Segmentation of Bis-seq data

DOI: 10.18129/B9.bioc.MethylSeekR

Bioconductor version: 3.10

This is a package for the discovery of regulatory regions from Bis-seq data

Author: Lukas Burger, Dimos Gaidatzis, Dirk Schubeler and Michael Stadler

Maintainer: Lukas Burger <Lukas.Burger at fmi.ch>

Citation (from within R, enter citation("MethylSeekR")):

Installation

To install this package, start R (version "3.6") and enter:


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

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("MethylSeekR")

MethylSeekR PDF R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews DNAMethylation, MethylSeq, Sequencing, Software

Version 1.26.0

In Bioconductor since BioC 2.12 (R-3.0) (11 years)

License GPL (>=2)

Depends rtracklayer(>= 1.16.3), parallel (>= 2.15.1), mhsmm (>= 0.4.4)

Imports IRanges(>= 1.16.3), BSgenome(>= 1.26.1), GenomicRanges(>= 1.10.5), geneplotter(>= 1.34.0), graphics (>= 2.15.2), grDevices (>= 2.15.2), parallel (>= 2.15.2), stats (>= 2.15.2), utils (>= 2.15.2)

System Requirements

URL

Suggests BSgenome.Hsapiens.UCSC.hg18

Linking To

Enhances

Depends On Me

Imports Me

Suggests Me methylPipe, RnBeads

Links To Me

Build Report Build Report

Package Archives

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

Source Package MethylSeekR_1.26.0.tar.gz

Windows Binary MethylSeekR_1.26.0.zip

Mac OS X 10.11 (El Capitan) MethylSeekR_1.26.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/MethylSeekR

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MethylSeekR

Bioc Package Browser https://code.bioconductor.org/browse/MethylSeekR/

Package Short Url https://bioconductor.org/packages/MethylSeekR/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.10 Source Archive