MethylSeekR

This is the development version of MethylSeekR; for the stable release version, see MethylSeekR.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12

Segmentation of Bis-seq data

Bioconductor version: Development (3.24)

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")):

Lukas Burger, Dimos Gaidatzis, Dirk Schubeler and Michael Stadler. MethylSeekR: Segmentation of Bis-seq data. doi:10.18129/B9.bioc.MethylSeekR, R package version 1.53.0, https://bioconductor.org/packages/MethylSeekR.

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("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	1.53.0
In Bioconductor since	BioC 2.12 (R-3.0) (13.5 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), GenomeInfoDb
System Requirements
URL

Suggests	BSgenome.Hsapiens.UCSC.hg38
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me	methylPipe, RnBeads
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	MethylSeekR_1.53.0.tar.gz
Windows Binary (x86_64)	MethylSeekR_1.53.0.zip
macOS Binary (big-sur-x86_64)	MethylSeekR_1.53.0.tgz
macOS Binary (sonoma-arm64)	MethylSeekR_1.53.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/MethylSeekR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/MethylSeekR
Package Short Url	https://bioconductor.org/packages/MethylSeekR/
Package Downloads Report	Download Stats