API for seroanalytics/serosolver
Inference Framework for Serological Data
| Global functions | |
|---|---|
| Fast observation error function continuous | Man page |
| add_measurement_shifts | Man page Source code |
| add_noise | Man page Source code |
| antibody_model | Man page Source code |
| calc_a | Source code |
| calc_b | Source code |
| calc_phi_loc_probs_indiv | Source code |
| calc_phi_probs | Man page Source code |
| calc_phi_probs_indiv | Man page Source code |
| calc_phi_probs_spline | Man page Source code |
| calculate_infection_history_statistics | Man page Source code |
| check_attack_rates | Man page Source code |
| check_data | Man page Source code |
| check_inf_hist | Man page Source code Source code |
| check_par_tab | Man page Source code |
| check_proposals | Man page Source code |
| create_age_mask | Man page Source code |
| create_cross_reactivity_vector | Man page Source code |
| create_posterior_func | Man page Source code |
| create_prior_lookup | Source code |
| create_prior_lookup_groups | Source code |
| create_prob_shifts | Man page Source code |
| create_sample_mask | Man page Source code |
| create_start_level_data | Man page |
| cs1_chains_real | Man page |
| cs1_chains_real_b | Man page |
| cs1_chains_sim | Man page |
| cs2_chains_real | Man page |
| cs2_chains_real_b | Man page |
| cs2_chains_sim | Man page |
| db | Man page Source code |
| dbb_prior | Man page Source code |
| density_beta_binom | Man page Source code |
| describe_priors | Man page Source code |
| estimate_mode | Man page Source code |
| example_antibody_data | Man page |
| example_antigenic_map | Man page |
| example_inf_chain | Man page |
| example_inf_hist | Man page |
| example_par_tab | Man page |
| example_theta_chain | Man page |
| expand_summary_inf_chain | Man page Source code Source code |
| find_beta_prior_mode | Man page Source code |
| find_beta_prior_with_mean | Man page Source code |
| find_beta_prior_with_mean_var | Man page Source code |
| fit_beta_prior | Man page Source code |
| fit_normal_prior | Man page Source code |
| fromUnitScale | Man page Source code |
| gen_spline_y | Man page Source code |
| generate_antigenic_map_flexible | Man page |
| generate_phis | Man page Source code |
| generate_quantiles | Man page Source code |
| generate_start_tab | Man page Source code |
| get_DOBs | Man page Source code |
| get_antibody_level_predictions | Man page Source code |
| get_best_pars | Man page Source code |
| get_index_pars | Man page Source code |
| get_n_alive | Man page Source code |
| get_n_alive_group | Man page Source code |
| get_starting_antibody_levels | Source code |
| get_total_number_infections | Man page Source code |
| identify_run_lengths | Man page |
| inf_hist_prop_prior_v2_and_v4 | Man page Source code |
| inf_hist_prop_prior_v3 | Man page Source code |
| inf_hist_swap | Man page Source code |
| inf_hist_swap_phi | Man page Source code |
| inf_mat_prior | Man page Source code |
| inf_mat_prior_cpp | Man page Source code |
| inf_mat_prior_cpp_vector | Man page Source code |
| inf_mat_prior_group_cpp | Man page Source code |
| inf_mat_prior_group_cpp_vector | Man page Source code |
| inf_mat_prior_total_group_cpp | Man page Source code |
| infection_history_prior | Man page Source code |
| infection_history_symmetric | Man page Source code |
| likelihood_func_fast | Man page Source code |
| likelihood_func_fast_continuous | Man page Source code |
| likelihood_func_fast_continuous_fp | Source code |
| load_antibody_data | Man page Source code |
| load_antigenic_map_file | Man page Source code |
| load_infection_chains | Man page Source code |
| load_mcmc_chains | Man page Source code |
| load_start_tab | Man page Source code |
| load_theta_chains | Man page Source code |
| logistic_transform | Source code Source code |
| logit_transform | Source code Source code |
| melt_antigenic_coords | Man page |
| mvr_proposal | Man page Source code |
| pad_inf_chain | Man page |
| pad_infection_model_prior_parameters | Man page Source code |
| plot_2d_density | Source code |
| plot_antibody_data | Man page Source code |
| plot_antibody_dependent_boosting | Man page Source code |
| plot_antibody_model | Man page Source code |
| plot_antibody_predictions | Man page Source code |
| plot_attack_rates | Man page Source code |
| plot_attack_rates_pointrange | Man page |
| plot_cumulative_infection_histories | Man page |
| plot_estimated_antibody_model | Man page Source code |
| plot_individual_number_infections | Man page |
| plot_infection_history_chains_indiv | Man page |
| plot_infection_history_chains_time | Man page |
| plot_mcmc_diagnostics | Source code |
| plot_model_fits | Man page Source code |
| plot_posteriors_infhist | Man page Source code |
| plot_posteriors_theta | Source code |
| plot_samples_distances | Man page Source code |
| plot_total_number_infections | Man page |
| prob_shifts | Man page Source code |
| protect | Man page Source code |
| protect_posterior | Man page Source code |
| r_likelihood | Man page Source code |
| r_likelihood_continuous | Man page Source code |
| rm_scale | Man page Source code |
| row.match | Source code |
| save_infection_history_to_disk | Man page Source code |
| scaletuning | Man page Source code |
| serosolver | Man page Source code |
| setup_antibody_data_for_posterior_func | Man page Source code |
| setup_infection_histories | Man page Source code |
| setup_infection_histories_antibody_level | Man page Source code |
| setup_infection_histories_prior | Man page Source code |
| simulate_antibody_model | Man page Source code |
| simulate_attack_rates | Man page Source code |
| simulate_data | Man page Source code |
| simulate_infection_histories | Man page Source code |
| subset_nullable_vector | Man page Source code |
| sum_buckets | Man page Source code |
| sum_infections_by_group | Man page Source code |
| sum_likelihoods | Man page Source code |
| summarize_run_lengths | Man page |
| to.pdf | Man page Source code |
| to.png | Man page Source code |
| to.svg | Man page Source code |
| toUnitScale | Man page Source code |
| transform_parameters_cpp | Source code |
| univ_proposal | Man page Source code |
| unregister_dopar | Man page |
