| calc_trackInd | Calculate the index of the first observation of each track... |
| cosinor | Evaluate trigonometric basis expansion |
| ddwell | State dwell-time distributions of periodically inhomogeneous... |
| dgmrf2 | Reparametrised multivariate Gaussian distribution |
| dirichlet | Dirichlet distribution |
| forward | Forward algorithm with homogeneous transition probability... |
| forward_g | General forward algorithm with time-varying transition... |
| forward_hsmm | Forward algorithm for homogeneous hidden semi-Markov models |
| forward_ihsmm | Forward algorithm for hidden semi-Markov models with... |
| forward_p | Forward algorithm with for periodically varying transition... |
| forward_phsmm | Forward algorithm for hidden semi-Markov models with... |
| forward_s | Forward algorithm for hidden semi-Markov models with... |
| forward_sp | Forward algorithm for hidden semi-Markov models with... |
| gamma2 | Reparametrised gamma distribution |
| gdeterminant | Computes generalised determinant |
| generator | Build the generator matrix of a continuous-time Markov chain |
| grapes-sp-grapes | Sparsity-retaining matrix multiplication |
| LaMa-package | LaMa: Fast Numerical Maximum Likelihood Estimation for Latent... |
| logLik.qremlModel | Extract log-likelihood from qremlModel object |
| make_matrices | Build the design and the penalty matrix for models involving... |
| make_matrices_dens | Build a standardised P-Spline design matrix and the... |
| make_matrices_old | Build the design and the penalty matrix for models involving... |
| minmax | AD-compatible minimum and maximum functions |
| minmax0_smooth | Smooth approximations to max(x, 0) and min(x, 0) |
| nessi | Loch Ness Monster Acceleration Data |
| penalty | Computes penalty based on quadratic form |
| penalty2 | Computes generalised quadratic-form penalties |
| penalty_uni | Penalty approximation of unimodality constraints for... |
| plot.LaMaResiduals | Plot pseudo-residuals |
| predict.LaMa_matrices | Build the prediction design matrix based on new data and... |
| pred_matrix | Build the prediction design matrix based on new data and... |
| process_hid_formulas | Process and standardise formulas for the state process of... |
| pseudo_res | Calculate pseudo-residuals |
| pseudo_res_discrete | Calculate pseudo-residuals for discrete-valued observations |
| qreml | Quasi restricted maximum likelihood (qREML) algorithm for... |
| qreml_old | Quasi restricted maximum likelihood (qREML) algorithm for... |
| sdreportMC | Monte Carlo version of 'sdreport' |
| sdreport_outer | Report uncertainty of the estimated smoothing parameters or... |
| skewnorm | Skew normal distribution |
| smooth_dens_construct | Build the design and penalty matrices for smooth density... |
| stateprobs | Calculate conditional local state probabilities for... |
| stateprobs_g | Calculate conditional local state probabilities for... |
| stateprobs_p | Calculate conditional local state probabilities for... |
| stationary | Compute the stationary distribution of a homogeneous Markov... |
| stationary_cont | Compute the stationary distribution of a continuous-time... |
| stationary_p | Periodically stationary distribution of a periodically... |
| stationary_p_sparse | Sparse version of 'stationary_p' |
| stationary_sparse | Sparse version of 'stationary' |
| summary.qremlModel | Summary method for 'qremlModel' objects |
| tpm | Build the transition probability matrix from unconstrained... |
| tpm_cont | Calculate continuous time transition probabilities |
| tpm_emb | Build the embedded transition probability matrix of an HSMM... |
| tpm_emb_g | Build all embedded transition probability matrices of an... |
| tpm_g | Build all transition probability matrices of an inhomogeneous... |
| tpm_g2 | Build all transition probability matrices of an inhomogeneous... |
| tpm_hsmm | Builds the transition probability matrix of an... |
| tpm_hsmm2 | Build the transition probability matrix of an... |
| tpm_ihsmm | Builds all transition probability matrices of an... |
| tpm_p | Build all transition probability matrices of a periodically... |
| tpm_phsmm | Builds all transition probability matrices of an... |
| tpm_phsmm2 | Build all transition probability matrices of an... |
| tpm_thinned | Compute the transition probability matrix of a thinned... |
| trex | T-Rex Movement Data |
| trigBasisExp | Compute the design matrix for a trigonometric basis expansion |
| viterbi | Viterbi algorithm for state decoding in homogeneous HMMs |
| viterbi_g | Viterbi algorithm for state decoding in inhomogeneous HMMs |
| viterbi_p | Viterbi algorithm for state decoding in periodically... |
| vm | von Mises distribution |
| wrpcauchy | wrapped Cauchy distribution |
| zero_inflate | Zero-inflated density constructer |
