Methylation array and sequencing spatial analysis methods

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Documentation for package ‘DMRcate’ version 3.5.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

DMRcate-package	DMR calling from bisulfite sequencing and Illumina array data
changeFDR	Change the individual CpG FDR thresholding for a CpGannotated object.
cpg.annotate	Annotate Illumina CpGs with their chromosome position and test statistic
CpGannotated-class	An object summarising individual CpG sites fitted to a given model
DMR.plot	Plotting DMRs
DMRcate	DMR calling from bisulfite sequencing and Illumina array data
dmrcate	DMR identification
DMResults-class	Initial storage object for called DMRs - class
extractRanges	Create a GRanges object from 'dmrcate' output.
getCollapsedBetas	Extract a beta matrix from a CpGannotated object.
plot	Plotting DMRs
rmSNPandCH	Filter probes
sequencing.annotate	Annotate a bisulfite sequencing experiment (WGBS or RRBS) with probe weights and chromosomal position.