Package: RAMEN
Title: Regional Association of Methylome variability with the Exposome
        and geNome
Version: 2.99.0
Authors@R: c(
    person("Erick I.", "Navarro-Delgado", 
            email = "erick.delgado@ubc.ca", 
            role = c("aut", "cre"),
            comment = c(ORCID = "0000-0003-1040-3519")),
    person("Keegan", "Korthauer", 
            role = "aut", 
            email = "keegan@stat.ubc.ca", 
            comment = c(ORCID = "0000-0002-4565-1654")),
    person("Michael S.", "Kobor", 
            email = "michael.kobor@ubc.ca",
            role = "aut",
            comment = c(ORCID = "0000-0003-4140-1743")),
    person("Lluís", "Revilla Sancho", 
            email = "lluis.revilla@gmail.com",
            role = "rev",
            comment = c(ORCID = "0000-0001-9747-2570")),
    person("Ulduz", "Vafadarshamasbi", 
            email = "vafadar.u@uq.edu.au",
            role = "rev",
            comment = c(ORCID = "0000-0002-8370-8084")),
    person("The University of British Columbia", role = "fnd")
            )
Description: RAMEN is an R package which goal is to identify Variable
        Methylated Loci (VML) in microarray DNA methylation data and
        then, using genome and exposome data, identify which individual
        genetic (G) or environmental (E) or joint (G+E or GxE) model
        better explains the VML variability. This package provides
        estimates of genetic and environmental contribution for each
        VML, allowing researchers to gain insights into the complex
        interplay between genetics, environment and DNA methylation.
License: GPL (>= 3)
Encoding: UTF-8
biocViews: DNAMethylation, GenomeWideAssociation, Epigenetics,
        Regression, SNP, Microarray, MethylationArray,
        GeneticVariability
Roxygen: list(markdown = TRUE)
Suggests: BiocStyle, knitr, magick, rmarkdown, ggplot2, tidyr,
        doParallel, IlluminaHumanMethylation450kanno.ilmn12.hg19,
        IlluminaHumanMethylationEPICv2anno.20a1.hg38, testthat (>=
        3.0.0)
Config/testthat/edition: 3
Imports: doRNG, dplyr, foreach, GenomicRanges, glmnet, IRanges,
        matrixStats, methods, relaimpo, S4Vectors,
        IlluminaHumanMethylationEPICanno.ilm10b4.hg19, stats
VignetteBuilder: knitr
Depends: R (>= 4.6.0)
LazyData: true
URL: https://ropensci.github.io/RAMEN/ ,
        https://github.com/ropensci/RAMEN/
BugReports: https://github.com/ropensci/RAMEN/issues
Config/roxygen2/version: 8.1.0
Config/pak/sysreqs: make libbz2-dev libicu-dev liblzma-dev libpng-dev
        libxml2-dev libssl-dev libx11-dev xz-utils zlib1g-dev
Repository: https://ropensci.r-universe.dev
Date/Publication: 2026-08-29 00:11:23 UTC
RemoteUrl: https://github.com/ropensci/RAMEN
RemoteRef: main
RemoteSha: 57405c7c8443c0c0039406883902fd8633846da6
NeedsCompilation: no
Packaged: 2026-08-29 09:44:31 UTC; root
Author: Erick I. Navarro-Delgado [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-1040-3519>),
  Keegan Korthauer [aut] (ORCID: <https://orcid.org/0000-0002-4565-1654>),
  Michael S. Kobor [aut] (ORCID: <https://orcid.org/0000-0003-4140-1743>),
  Lluís Revilla Sancho [rev] (ORCID:
    <https://orcid.org/0000-0001-9747-2570>),
  Ulduz Vafadarshamasbi [rev] (ORCID:
    <https://orcid.org/0000-0002-8370-8084>),
  The University of British Columbia [fnd]
Maintainer: Erick I. Navarro-Delgado <erick.delgado@ubc.ca>