DMRcate: Methylation array and sequencing spatial analysis methods

De novo identification and extraction of differentially methylated regions (DMRs) from the human genome using Whole Genome Bisulphite 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.

AuthorTim Peters
Date of publicationNone
MaintainerTim Peters <t.peters@garvan.org.au>
Licensefile LICENSE
Version1.10.8

View on Bioconductor

Files

DMRcate/DESCRIPTION
DMRcate/LICENSE
DMRcate/NAMESPACE
DMRcate/NEWS
DMRcate/R
DMRcate/R/DMR.plot.R DMRcate/R/KernelSums.R DMRcate/R/KernelTest.R DMRcate/R/SparseDeltas.R DMRcate/R/cpg.annotate.R DMRcate/R/dmrcate.R DMRcate/R/extractCoords.R DMRcate/R/extractRanges.R DMRcate/R/fitParallel.R DMRcate/R/rmSNPandCH.R
DMRcate/build
DMRcate/build/vignette.rds
DMRcate/data
DMRcate/inst
DMRcate/inst/CITATION
DMRcate/inst/doc
DMRcate/inst/doc/DMRcate.R
DMRcate/inst/doc/DMRcate.Rnw
DMRcate/inst/doc/DMRcate.pdf
DMRcate/inst/unitTests
DMRcate/inst/unitTests/test_pipeline.R
DMRcate/man
DMRcate/man/DMR.plot.Rd DMRcate/man/DMRcate-internal.Rd DMRcate/man/DMRcate-package.Rd DMRcate/man/cpg.annotate.Rd DMRcate/man/dmrcate.Rd DMRcate/man/extractRanges.Rd DMRcate/man/rmSNPandCH.Rd
DMRcate/tests
DMRcate/tests/runTests.R
DMRcate/vignettes
DMRcate/vignettes/DMRcate.Rnw
DMRcate/vignettes/heynSNP.pdf

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