Package: epialleleR
Title: Fast, Accurate, Epiallele-Aware Methylation Caller and Reporter
Version: 1.20.0
Authors@R: 
  person(given = "Oleksii",
    family = "Nikolaienko",
    role = c("aut", "cre"),
    email = "oleksii.nikolaienko@gmail.com",
    comment = c(ORCID = "0000-0002-5910-4934"))
Description: Epialleles are specific DNA methylation patterns that are
        mitotically and/or meiotically inherited. This package calls
        and reports cytosine methylation as well as frequencies of
        hypermethylated epialleles at the level of genomic regions or
        individual cytosines in next-generation sequencing data using
        binary alignment map (BAM) files as an input. Among other
        things, this package can also extract and visualise methylation
        patterns and assess allele specificity of methylation.
SystemRequirements: C++17, GNU make
NeedsCompilation: yes
Depends: R (>= 4.1)
Imports: stats, methods, utils, data.table, BiocGenerics,
        GenomicRanges, Rcpp
LinkingTo: Rcpp, BH, Rhtslib
Suggests: GenomeInfoDb, SummarizedExperiment, VariantAnnotation, RUnit,
        knitr, rmarkdown, ggplot2
License: Artistic-2.0
URL: https://github.com/BBCG/epialleleR
BugReports: https://github.com/BBCG/epialleleR/issues
Encoding: UTF-8
biocViews: DNAMethylation, Epigenetics, MethylSeq, LongRead
RoxygenNote: 7.3.3
VignetteBuilder: knitr
Config/pak/sysreqs: make libbz2-dev liblzma-dev xz-utils zlib1g-dev
Repository: Bioconductor 3.23
Date/Publication: 2026-04-28 12:56:05 UTC
RemoteUrl: https://github.com/bioc/epialleleR
RemoteRef: RELEASE_3_23
RemoteSha: ad311c0e1dd399b02f365da484624173660afaa2
Packaged: 2026-10-09 14:11:07 UTC; root
Author: Oleksii Nikolaienko [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-5910-4934>)
Maintainer: Oleksii Nikolaienko <oleksii.nikolaienko@gmail.com>