| AIC.momentuHMM | AIC |
| AICweights | Calculate Akaike information criterion model weights |
| allProbs | Matrix of all probabilities |
| checkPar0 | Check parameter length and order for a 'fitHMM' (or... |
| CIbeta | Confidence intervals for working (i.e., beta) parameters |
| circAngles | Convert standard direction angles (in radians relative to the... |
| CIreal | Confidence intervals for the natural (i.e., real) parameters |
| crawlMerge | Merge crwData or crwHierData object with additional data... |
| crawlWrap | Fit and predict tracks for using crawl |
| crwData | Constructor of 'crwData' objects |
| crwHierData | Constructor of 'crwHierData' objects |
| crwHierSim | Constructor of 'crwHierSim' objects |
| crwSim | Constructor of 'crwSim' objects |
| dbern_rcpp | Bernoulli density function |
| dbeta_rcpp | Probability density function of the beta distribution... |
| dcat_rcpp | Categorical density function |
| dexp_rcpp | Exponential density function |
| dgamma_rcpp | Gamma density function |
| distAngle | Calculate distance between points y and z and turning angle... |
| dlnorm_rcpp | Log-normal density function |
| dlogis_rcpp | logistic density function |
| dmvnorm_rcpp | C++ implementation of multivariate Normal probability density... |
| dnbinom_rcpp | negative binomial density function |
| dnorm_rcpp | Normal density function |
| dpois_rcpp | Poisson density function |
| dt_rcpp | student t density function |
| dvm_rcpp | Von Mises density function |
| dweibull_rcpp | Weibull density function |
| dwrpcauchy_rcpp | Wrapped Cauchy density function |
| exampleData | Example dataset |
| expandPar | Expand vector of free working parameters to vector of all... |
| fitHMM | Fit a multivariate HMM to the data |
| formatHierHMM | Convert hierarchical HMM structure to a conventional HMM |
| getCovNames | Get names of any covariates used in probability distribution... |
| getDM_rcpp | Get design matrix |
| getPar | Get starting values from momentuHMM, miHMM, or miSum object... |
| getPar0 | Get starting values for new model from existing 'momentuHMM'... |
| getParDM | Get starting values on working scale based on design matrix... |
| getTrProbs | Transition probability matrix |
| HMMfits | Constructor of 'HMMfits' objects |
| is.crwData | Is crwData |
| is.crwHierData | Is crwHierData |
| is.crwHierSim | Is crwHierSim |
| is.crwSim | Is crwSim |
| is.HMMfits | Is HMMfits |
| is.miHMM | Is miHMM |
| is.miSum | Is miSum |
| is.momentuHierHMM | Is momentuHierHMM |
| is.momentuHierHMMData | Is momentuHierHMMData |
| is.momentuHMM | Is momentuHMM |
| is.momentuHMMData | Is momentuHMMData |
| logAlpha | Forward log-probabilities |
| logBeta | Backward log-probabilities |
| MIfitHMM | Fit HMMs to multiple imputation data |
| miHMM | Constructor of 'miHMM' objects |
| MIpool | Calculate pooled parameter estimates and states across... |
| miSum | Constructor of 'miSum' objects |
| mixtureProbs | Mixture probabilities |
| momentuHierHMM | Constructor of 'momentuHierHMM' objects |
| momentuHierHMMData | Constructor of 'momentuHierHMMData' objects |
| momentuHMM | Constructor of 'momentuHMM' objects |
| momentuHMMData | Constructor of 'momentuHMMData' objects |
| n2w | Scaling function: natural to working parameters. |
| nLogLike | Negative log-likelihood function |
| nLogLike_rcpp | Negative log-likelihood |
| parDef | Parameters definition |
| plot.crwData | Plot 'crwData' |
| plot.miHMM | Plot 'miHMM' |
| plot.miSum | Plot 'miSum' |
| plot.momentuHMM | Plot 'momentuHMM' |
| plot.momentuHMMData | Plot 'momentuHMMData' or 'momentuHierHMMData' |
| plotPR | Plot pseudo-residuals |
| plotSat | Plot observations on satellite image |
| plotSpatialCov | Plot observations on raster image |
| plotStates | Plot states |
| plotStationary | Plot stationary state probabilities |
| prepData | Preprocessing of the data streams and covariates |
| print.miHMM | Print 'miHMM' |
| print.miSum | Print 'miSum' |
| print.momentuHMM | Print 'momentuHMM' |
| pseudoRes | Pseudo-residuals |
| randomEffects | Random effects estimation |
| setModelName | Set 'modelName' for a 'momentuHMM', 'miHMM', 'HMMfits', or... |
| setStateNames | Set 'stateNames' for a 'momentuHMM', 'miHMM', 'HMMfits', or... |
| simData | Simulation tool |
| simObsData | Observation error simulation tool |
| stateProbs | State probabilities |
| stationary | Stationary state probabilities |
| summary.momentuHMMData | Summary 'momentuHMMData' |
| timeInStates | Calculate proportion of time steps assigned to each state... |
| trMatrix_rcpp | Transition probability matrix |
| turnAngle | Turning angle |
| viterbi | Viterbi algorithm |
| w2n | Scaling function: working to natural parameters |
| XBloop_rcpp | Get XB |
