DMR Detection by Non-Homogeneous Hidden Markov Model from Methylation Array Data

Documentation for package ‘DMRMark’ version 1.1.1

DMRMark-package	DMR Detection by Non-Homogeneous Hidden Markov Model from Methylation Array Data
BLCA	Single paired M-values of BLCA chr18 from TCGA
boundFinder	Find a pair of reasonable distances of group means for hyper- and hypomethylation based on the quantile of two-group difference.
DMRMark	Gibbs Sampler to estimate model parameters
DMRViterbi	Viterbi algorithm to estimate posterior probabilities of DMRs.
FullSample	Function implementing Gibbs Sampler with old-version interface
MakeGSoptions	Encapsulate prior parameters and Gibbs Sampler (GS) control parameters
mvScatter	Visualize the distributions of M-value pairs from differentially methylated CpG sites (DMC) or non-DMCs
reformData	Reform M-values into a two-column matrix.