| BaumWelch | Estimation Using Baum-Welch Algorithm |
| bwcontrol | Control Parameters for Baum Welch Algorithm |
| Changes | Changes Made to Package HiddenMarkov |
| compdelta | Marginal Distribution of Stationary Markov Chain |
| Demonstration | Demonstration Examples |
| dthmm | Discrete Time HMM Object (DTHMM) |
| Estep | E-Step of EM Algorithm for DTHMM |
| forwardback | Forward and Backward Probabilities of DTHMM |
| HiddenMarkov | Overview of Package HiddenMarkov |
| HiddenMarkov-defunct | Defunct Functions in Package HiddenMarkov |
| HiddenMarkov-dthmm-deprecated | Discrete Time HMM - Deprecated Functions |
| HiddenMarkov-internal | Internally Used Functions |
| HiddenMarkov-mmpp-deprecated | Markov Modulated Poisson Process - Deprecated Functions |
| logLik | Log Likelihood of Hidden Markov Model |
| mchain | Markov Chain Object |
| mmglm | Markov Modulated GLM Object |
| mmglm-2nd-level-functions | Markov Modulated Generalised Linear Model - 2nd Level... |
| mmpp | Markov Modulated Poisson Process Object |
| mmpp-2nd-level-functions | Markov Modulated Poisson Process - 2nd Level Functions |
| Mstep | M-Step of EM Algorithm for DTHMM |
| neglogLik | Negative Log-Likelihood |
| probhmm | Conditional Distribution Function of DTHMM |
| residuals | Residuals of Hidden Markov Model |
| simulate | Simulate Hidden Markov Process |
| summary | Summary of Hidden Markov Model |
| Transform-Parameters | Transform Transition or Rate Matrices to Vector |
| Viterbi | Viterbi Algorithm for Hidden Markov Model |
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