Package: DMRcate
Title: Methylation array and sequencing spatial analysis methods
Version: 3.6.0
Date: 2025-08-31
Author: Tim Peters
Authors@R: c(person("Tim", "Peters", role = c("cre", "aut"),
                    email = "t.peters@garvan.org.au"),
	     person("Mike", "Buckley", role = "aut"),
	     person("Braydon", "Meyer", role = "ctb"),
             person("Aaron", "Statham", role = "ctb"),
             person("Tim", "Triche, Jr.", role = "ctb"))
Description: De novo identification and extraction of differentially
        methylated regions (DMRs) from the human genome using Whole
        Genome Bisulfite Sequencing (WGBS) and Illumina Infinium Array
        (450K and EPIC) data. Provides functionality for filtering
        probes possibly confounded by SNPs and cross-hybridisation.
        Includes GRanges generation and plotting functions.
Depends: R (>= 4.3.0)
Imports: AnnotationHub, ExperimentHub, bsseq, Seqinfo, limma, edgeR,
        minfi, missMethyl, GenomicRanges, plyr, Gviz, IRanges, stats,
        utils, S4Vectors, methods, graphics, SummarizedExperiment,
        biomaRt, grDevices
biocViews: DifferentialMethylation, GeneExpression, Microarray,
        MethylationArray, Genetics, DifferentialExpression,
        GenomeAnnotation, DNAMethylation, OneChannel, TwoChannel,
        MultipleComparison, QualityControl, TimeCourse, Sequencing,
        WholeGenome, Epigenetics, Coverage, Preprocessing, DataImport
Suggests: knitr, RUnit, BiocGenerics, GenomeInfoDb,
        IlluminaHumanMethylation450kanno.ilmn12.hg19,
        IlluminaHumanMethylationEPICanno.ilm10b4.hg19,
        IlluminaHumanMethylationEPICv2anno.20a1.hg38,
        FlowSorted.Blood.EPIC, tissueTreg, DMRcatedata, EPICv2manifest
License: file LICENSE
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-11-13 03:31:58 UTC; root
Maintainer: Tim Peters <t.peters@garvan.org.au>
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:18:14 UTC
RemoteUrl: https://github.com/bioc/DMRcate
RemoteRef: RELEASE_3_22
RemoteSha: d522a970fb9b181239ee15554ea2cdbc143c7f0c
Built: R 4.5.2; ; 2025-11-13 03:48:48 UTC; windows
