Man pages for benaug/move.HMM
Fit HMM and HSMM animal movement models
| Distributions | Parameter transformations and distribution functions |
| dlnorm3 | Shifted lognormal pdf |
| dshiftnegbin | Shifted negative binomial pdf |
| dshiftpois | Shifted Poisson pdf |
| dwrpnorm | Wrapped normal pdf |
| dzanegbin | Zero-altered Negative Binomial PDF |
| gen.Gamma | Generate t.p.m. to approximate HSMM with HMM |
| HMM.plot | Plot a move.HMM object |
| HSMM.plot | Plot a move.HSMM object |
| move.HMM.ACF | ACF plot |
| move.HMM.Altman | Altman plot |
| move.HMM.CI | Add confidence intervals to a move.HMM object |
| move.HMM.dwell.plot | Dwell Plot |
| move.HMM.lalphabeta | Compute forward and backwards probabilities |
| move.HMM.mle | Fit a Hidden Markov Model (HMM) via maximum likelihood |
| move.HMM.mllk | Compute negative log likelihood of HMM |
| move.HMM.mllk.full | Compute negative log likelihood of HMM using all parameters |
| move.HMM-package | Fit hidden Markov models and hidden semi-Markov... |
| move.HMM.pn2pw | Transform parameters to the working scale |
| move.HMM.psresid | Compute and plot pseudoresiduals |
| move.HMM.pw2pn | Transform parameters back to real scale |
| move.HMM.simulate | Simulate data from a hidden markov model |
| move.HMM.state_probs | Compute conditional and posterior state probabilities |
| move.HMM.viterbi | Assign states using the Viterbi algorithm |
| move.HSMM.ACF | ACF plot |
| move.HSMM.Altman | Altman plot |
| move.HSMM.CI | Add confidence intervals to a move.HSMM object |
| move.HSMM.dwell.plot | Dwell Plot |
| move.HSMM.lalphabeta | Compute forward and backwards probabilities for a move.HSMM... |
| move.HSMM.mle | Fit a Hidden Semi Markov Model (HSMM) via maximum likelihood |
| move.HSMM.mllk | Compute negative log likelihood of HSMM |
| move.HSMM.mllk.full | Compute negative log likelihood of HSMM using all parameters |
| move.HSMM.pn2pw | Transform parameters to the working scale |
| move.HSMM.psresid | Compute and plot pseudoresiduals |
| move.HSMM.pw2pn | Transform parameters back to real scale |
| move.HSMM.simulate | Simulate data from a hidden semi markov model |
| move.HSMM.state_probs | Compute conditional and posterior state probabilities |
| move.HSMM.viterbi | Assign states using the Viterbi algorithm |
| plnorm3 | Shifted lognormal cdf |
| print.move.HMM | Print a move.HMM object |
| print.move.HSMM | Print a move.HSMM object |
| pshiftnegbin | Shifted negative binomial cdf |
| pshiftpois | Shifted Poisson cdf |
| pwrpcauchy | Wrapped cauchy cdf |
| pwrpnorm | Wrapped normal cdf |
| pzanegbin | Zero-altered Negative Binomial CDF |
| qlnorm3 | Shifted lognormal quantile function |
| rlnorm3 | Shifted lognormal random number generation |
| rshiftnegbin | Generate random deviates shifted negative binomial pdf |
| rshiftpois | Generate random deviates shifted Poisson pdf |
| rwrpcauchy | Wrapped cauchy random number generation |
| rwrpnorm | Wrapped normal random number generation |
| rzanegbin | Zero-altered Negative Binomial random number generation |
| stationaryDist | Calculate the stationary distribution from the t.p.m. |
