Man pages for jameshay218/antibodyKinetics
antibodyKinetics
| add_noise | Add noise to a titre observation |
| add_noise_serosolver | Add noise |
| calc_deviance | Deviance |
| calc_post_mean | Posterior mean |
| calc_post_var | Posterior variance |
| calculate_BIC | BIC calculation |
| calculate_DIC | DIC |
| calculate_lik_matrix | Calculate per data point likelihood matrix |
| calculate_loo | Calculate LOOIC using loo package |
| calculate_WAIC | WAIC using the pwaic2 in Gelman 2013 |
| calculate_x | Antigenic distance calc |
| convert_options_to_runName | Convert options to runName |
| convert_runName_to_options | Convert runName string |
| create_data | Create simulated titre data |
| create_model_func | Create model function pointer |
| create_model_group_func | Create model function pointer groups |
| create_model_group_func_cpp | Create model function pointer cpp implementation |
| exampleExposureTab | Example Exposure Table Exposure input table used to generate... |
| exampleParTab | Example Parameter Table |
| exposure_times | Exposure times group Experimental group index exposure... |
| ferret_titres | Ferret titre data group Experimental group index strain... |
| fromUnitScale | Converts to linear scale |
| generate_prediction_intervals | Generate prediction intervals from MCMC chain |
| get_best_pars | Best pars |
| get_index_pars | Index pars |
| get_titre_labels | Get titre data labels |
| model_func | Model solver for one group |
| model_func_group_cpp | Model calculation cpp implementation |
| model_func_groups | Multiple group model trajectory |
| model_trajectory | Model Model trajectory calc |
| model_trajectory_cpp | Model trajectory calc cpp |
| mvr_proposal | Multivariate proposal function |
| norm_error | Discretised normal error |
| obs_error | Observation error matrix solver |
| obs_likelihood | Observation error function |
| parameter_descriptions | Describe model parameters |
| parTab_modification | Modify parameter table |
| plot_single_fit | Plot single trajectory model fit |
| posterior_func_group_cpp | Posterior calculation cpp implementation |
| protect | Protect function |
| read_ferret_data | Read in ferret data |
| run_MCMC | Adaptive Metropolis-within-Gibbs Random Walk Algorithm. |
| scaletuning | Scale step sizes |
| toUnitScale | Converts to unit scale |
| univ_proposal | MCMC proposal function |
