calculategphmm | Calculate GPHMM probability. |
computeCounts | Compute counts for emissions and transitions. |
computegphmm | Compute GPHMM log probability. |
computeGphmmParam | Compute gphmm parameters from counts. |
generateRandomSequences | Split randomly any R object for which method length() has been defined into a train set and a test set. |
generateRead | Generate a noisy read from a true sequence. |
initializeGphmm | Initial parameters for gphmm. |
makeGphmmPerRead | Create a function to compute gphmm probabilities during the training. |