# Differentially Methylated CpG using Hidden Markov Model

## Documentation for package ‘DMCHMM’ version 1.20.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

DMCHMM-package | Differentially Methylated CpG using Hidden Markov Model
BSData | BSData object
BSData-class | BSData object
BSDMCs | BSDMCs object
BSDMCs-class | BSDMCs object
cBSData | cBSData method
cBSData-method | cBSData method
cBSDMCs | cBSDMCs method
cBSDMCs-method | cBSDMCs method
combine | combine method
combine-method | combine method
data | data
DMCHMM | Differentially Methylated CpG using Hidden Markov Model
findDMCs | findDMCs method
findDMCs-method | findDMCs method
manhattanDMCs | manhattanDMCs method
manhattanDMCs-method | manhattanDMCs method
methHMEM | methHMEM method
methHMEM-method | methHMEM method
methHMMCMC | methHMMCMC method
methHMMCMC-method | methHMMCMC method
methLevels | methLevels method
methLevels-method | methLevels method
methLevels<- | methLevels method
methLevels<--method | methLevels method
methReads | methReads method
methReads-method | methReads method
methReads<- | methReads method
methReads<--method | methReads method
methStates | methStates method
methStates-method | methStates method
methStates<- | methStates method
methStates<--method | methStates method
methVars | methVars method
methVars-method | methVars method
methVars<- | methVars method
methVars<--method | methVars method
params | params
qqDMCs | qqDMCs method
qqDMCs-method | qqDMCs method
readBismark | readBismark method
readBismark-method | readBismark method
totalReads | totalReads method
totalReads-method | totalReads method
totalReads<- | totalReads method
totalReads<--method | totalReads method
writeBED | writeBED method
writeBED-method | writeBED method