Package: MAGAR
Type: Package
Title: MAGAR: R-package to compute methylation Quantitative Trait Loci
        (methQTL) from DNA methylation and genotyping data
Version: 1.17.0
Date: 2024-11-13
Authors@R: c(
    person("Michael", "Scherer", email="michael.scherer@dkfz.de", role=c("cre", "aut"), comment = c(ORCID = "0000-0001-7990-6179"))
    )
Description: "Methylation-Aware Genotype Association in R" (MAGAR) computes methQTL from DNA methylation and genotyping data from matched samples. MAGAR uses a linear modeling stragety to call CpGs/SNPs that are methQTLs. MAGAR accounts for the local correlation structure of CpGs.
License: GPL-3
Imports: doParallel, igraph, bigstatsr, rjson, plyr, data.table,
        UpSetR, reshape2, jsonlite, methods, ff, argparse, impute,
        RnBeads.hg19, RnBeads.hg38, utils, stats
Depends: R (>= 4.1), HDF5Array, RnBeads, snpStats, crlmm
Suggests: gridExtra, VennDiagram, qqman, LOLA, RUnit, rmutil,
        rmarkdown, JASPAR2018, TFBSTools, seqLogo, knitr, devtools,
        BiocGenerics, BiocManager
Encoding: UTF-8
RoxygenNote: 7.2.3
VignetteBuilder: knitr
biocViews: Regression, Epigenetics, DNAMethylation, SNP,
        GeneticVariability, MethylationArray, Microarray, CpGIsland,
        MethylSeq, Sequencing, mRNAMicroarray, Preprocessing,
        CopyNumberVariation, TwoChannel, ImmunoOncology,
        DifferentialMethylation, BatchEffect, QualityControl,
        DataImport, Network, Clustering, GraphAndNetwork
BugReports: https://github.com/MPIIComputationalEpigenetics/MAGAR/issues
URL: https://github.com/MPIIComputationalEpigenetics/MAGAR
git_url: https://git.bioconductor.org/packages/MAGAR
git_branch: devel
git_last_commit: 3c836f4
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.22
Date/Publication: 2025-06-04
NeedsCompilation: no
Packaged: 2025-06-05 00:04:33 UTC; biocbuild
Author: Michael Scherer [cre, aut] (ORCID:
    <https://orcid.org/0000-0001-7990-6179>)
Maintainer: Michael Scherer <michael.scherer@dkfz.de>
Built: R 4.5.0; ; 2025-06-05 13:19:19 UTC; windows
