Package: epialleleR
Title: Fast, Epiallele-Aware Methylation Caller and Reporter
Version: 1.16.0
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: 7.3.2
VignetteBuilder: knitr
git_url: https://git.bioconductor.org/packages/epialleleR
git_branch: RELEASE_3_21
git_last_commit: 91aa1ac
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.21
Date/Publication: 2025-04-15
Packaged: 2025-04-16 00:32:49 UTC; biocbuild
Author: Oleksii Nikolaienko [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-5910-4934>)
Maintainer: Oleksii Nikolaienko <oleksii.nikolaienko@gmail.com>
Built: R 4.5.0; x86_64-w64-mingw32; 2025-04-16 14:24:20 UTC; windows
Archs: x64
