Man pages for simonecollier/lizardHMM
Fitting Lizard Movement Data with HMMs
| covariate_ci | Compute transition probability matrices for plotting |
| euclidean_distance | Compute Euclidean distance |
| fit_tpm | Compute transition probability matrices |
| foralg | Execute the forward algorithm |
| foralg_covar | Execute the forward algorithm |
| gam0_allprobs | Compute allprobs |
| gam0_ci | Compute the confidence intervals |
| gam0_ci_data | Reformat confidence interval data |
| gam0_fit_hmm | Fit an HMM |
| gam0_forecast_psr | Compute forecast zero inflated gamma pseudo-residuals |
| gam0_hist_ci | Plot histograms with confidence intervals |
| gam0_hist_viterbi | Plot histograms |
| gam0_loglikelihood | Compute negative log-likelihood of gamma HMM parameters |
| gam0_natural_params | Transform gamma HMM parameters from working to natural |
| gam0_natural_vec | Convert working parameters to a vector of natural parameters |
| gam0_viterbi | Global decoding by the Viterbi algorithm |
| gam0_working_ind | Get indices of parameters in working vector |
| gam0_working_params | Transform gamma HMM parameters from natural to working |
| gam_allprobs | Compute allprobs |
| gam_ci | Compute the confidence intervals |
| gam_ci_data | Reformat confidence interval data |
| gam_dist_ci_data | Compute the confidence intervals of fitted gamma... |
| gam_fit_hmm | Fit an HMM |
| gam_forecast_psr | Compute forecast gamma pseudo-residuals |
| gam_hist_ci | Plot histograms with confidence intervals |
| gam_logforward | Compute log forward probabilities |
| gam_loglikelihood | Compute negative log-likelihood of gamma HMM parameters |
| gam_natural_params | Transform gamma HMM parameters from working to natural |
| gam_natural_vec | Convert working parameters to a vector of natural parameters |
| gam_viterbi | Global decoding by the Viterbi algorithm |
| gam_working_ind | Get indices of parameters in working vector |
| gam_working_params | Transform gamma HMM parameters from natural to working |
| norm0_natural_params | Transform normal HMM parameters from working to natural |
| norm0_working_ind | Get indices of parameters in working vector |
| norm0_working_params | Transform normal HMM parameters from natural to working |
| norm_allprobs | Compute allprobs |
| norm_ci | Compute the confidence intervals |
| norm_ci_data | Reformat confidence interval data |
| norm_dist_ci_data | Compute the confidence intervals of fitted normal... |
| norm_fit_hmm | Fit an HMM |
| norm_forecast_psr | Compute forecast normal pseudo-residuals |
| norm_generate_sample | Generate data from a normal HMM |
| norm_hist | Plot histograms |
| norm_hist_ci | Plot histograms with confidence intervals |
| norm_logforward | Compute log forward probabilities |
| norm_loglikelihood | Compute negative log-likelihood of normal HMM parameters |
| norm_natural_params | Transform normal HMM parameters from working to natural |
| norm_natural_vec | Convert working parameters to a vector of natural parameters |
| norm_viterbi | Global decoding by the Viterbi algorithm |
| norm_working_ind | Get indices of parameters in working vector |
| norm_working_params | Transform normal HMM parameters from natural to working |
| plot_delta_entries | Plot entries of stationary distributions |
| plot_tpm_entries | Plot entries of transition probability matrices |
| psr_acf | ACF plot of normal pseudo-residuals |
| psr_hist | Plot normal pseudo-residuals |
| psr_plot | Plot normal pseudo-residuals |
| psr_qq | Quantile-quantile plot of normal pseudo-residuals |
| split_vec | Split vector into list |
| timeseries_plot | Plot timeseries of observations |
