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Bioconductor - BiSeq (development version)

BiSeq

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

Processing and analyzing bisulfite sequencing data

Bioconductor version: Development (3.22)

The BiSeq package provides useful classes and functions to handle and analyze targeted bisulfite sequencing (BS) data such as reduced-representation bisulfite sequencing (RRBS) data. In particular, it implements an algorithm to detect differentially methylated regions (DMRs). The package takes already aligned BS data from one or multiple samples.

Author: Katja Hebestreit, Hans-Ulrich Klein

Maintainer: Katja Hebestreit <katja.hebestreit at gmail.com>

Citation (from within R, enter citation("BiSeq")): Installation

To install this package, start R (version "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("BiSeq")

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("BiSeq")
Details biocViews DNAMethylation, Genetics, MethylSeq, Sequencing, Software Version 1.49.0 In Bioconductor since BioC 2.12 (R-3.0) (12.5 years) License LGPL-3 Depends R (>= 3.5.0), methods, S4Vectors, IRanges(>= 1.17.24), GenomicRanges, SummarizedExperiment(>= 0.2.0), Formula Imports methods, BiocGenerics, Biobase, S4Vectors, IRanges, GenomeInfoDb, GenomicRanges, SummarizedExperiment, rtracklayer, parallel, betareg, lokern, Formula, globaltest System Requirements URL See More Package Archives

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

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