DOI: 10.18129/B9.bioc.DMRcaller  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see DMRcaller.

Differentially Methylated Regions caller

Bioconductor version: 3.16

Uses Bisulfite sequencing data in two conditions and identifies differentially methylated regions between the conditions in CG and non-CG context. The input is the CX report files produced by Bismark and the output is a list of DMRs stored as GRanges objects.

Author: Nicolae Radu Zabet <n.r.zabet at>, Jonathan Michael Foonlan Tsang <jmft2 at>, Alessandro Pio Greco <apgrec at> and Ryan Merritt <rmerri at>

Maintainer: Nicolae Radu Zabet <n.r.zabet at>

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


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biocViews Coverage, DNAMethylation, DifferentialMethylation, Sequencing, Software
Version 1.30.0
In Bioconductor since BioC 3.1 (R-3.2) (8 years)
License GPL-3
Depends R (>= 3.5), GenomicRanges, IRanges, S4Vectors(>= 0.23.10)
Imports parallel, Rcpp, RcppRoll, betareg, grDevices, graphics, methods, stats, utils
Suggests knitr, RUnit, BiocGenerics
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