Package: ramr
Title: Detection of Rare Aberrantly Methylated Regions in Array and NGS
        Data
Version: 1.19.0
Authors@R: 
  person(given = "Oleksii",
    family = "Nikolaienko",
    role = c("aut", "cre"),
    email = "oleksii.nikolaienko@gmail.com",
    comment = c(ORCID = "0000-0002-5910-4934"))
Description: ramr is an R package for detection of epimutations (i.e.,
        infrequent aberrant DNA methylation events) in large data sets
        obtained by methylation profiling using array or
        high-throughput methylation sequencing. In addition, package
        provides functions to visualize found aberrantly methylated
        regions (AMRs), to generate sets of all possible regions to be
        used as reference sets for enrichment analysis, and to generate
        biologically relevant test data sets for performance evaluation
        of AMR/DMR search algorithms.
SystemRequirements: C++20, GNU make
NeedsCompilation: yes
Depends: R (>= 4.1)
Imports: methods, data.table, Seqinfo, GenomicRanges, IRanges,
        BiocGenerics, S4Vectors, Rcpp
LinkingTo: Rcpp
Suggests: RUnit, knitr, rmarkdown, ggplot2, gridExtra, annotatr, LOLA,
        org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene, parallel,
        doParallel, foreach, doRNG, matrixStats, EnvStats, ExtDist,
        gamlss, gamlss.dist
License: Artistic-2.0
URL: https://github.com/BBCG/ramr
BugReports: https://github.com/BBCG/ramr/issues
Encoding: UTF-8
biocViews: DNAMethylation, DifferentialMethylation, Epigenetics,
        MethylationArray, MethylSeq
RoxygenNote: 7.3.2
VignetteBuilder: knitr
Config/pak/sysreqs: make
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 15:05:28 UTC
RemoteUrl: https://github.com/bioc/ramr
RemoteRef: HEAD
RemoteSha: d6a405c9d5b57d7926c25d71e359da43010463f9
Packaged: 2025-11-03 03:44:23 UTC; root
Author: Oleksii Nikolaienko [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-5910-4934>)
Maintainer: Oleksii Nikolaienko <oleksii.nikolaienko@gmail.com>
Built: R 4.6.0; x86_64-w64-mingw32; 2025-11-03 03:48:23 UTC; windows
Archs: x64
