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| 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 |