Man pages for eehh-stanford/baydem
Bayesian Tools for Reconstructing Past and Present Demography
| add_shaded_quantiles | Add a shaded region showing the min/max quantiles |
| assess_calib_curve_equif | Assess the equifinality or time spans in the input... |
| calc_calib_curve_equif_dates | Calculate equifinal dates for each point in the calibration... |
| calc_calib_curve_frac_modern | Calculation the calibration curve fraction modern value for... |
| calc_gauss_mix_pdf | Caculate the density of a possibly truncated Gaussian mixture |
| calc_gauss_mix_pdf_mat | Calculate the density of a possibly truncated Gaussian... |
| calc_half_life_from_peak | For each sample, calculate the time it takes for the density... |
| calc_meas_matrix | Calculate the measurement matrix given N observations and G... |
| calc_quantiles | Calculate the quantiles for an input matrix X |
| calc_relative_density | Calculate the relative density at two dates (or a range of... |
| calc_tau_range | Calculate a calendar date range that spans the input... |
| calc_trapez_weights | Calculate integration weights assuming the midpoint rule |
| calc_trunc_gauss_mix_neg_log_lik | Calculate the negative log-likelihood of a truncuated... |
| do_bayesian_inference | Do Bayesian inference given a set of radiocarbon measurements... |
| do_bayesian_summary | Summarize the best model sampled by do_bayesian_inference |
| draw_rc_meas_using_date | Simulate radiocarbon measurements from input calendar dates |
| extract_param | Extract the Bayesian samples for a Gaussian mixture model... |
| fit_trunc_gauss_mix | Fit a truncated Gaussian mixture to radiocarbon data using... |
| import_rc_data | Import radiocarbon data from a .csv file |
| init_trunc_gauss_mix | Do random number draws to initialize a truncated Gaussian... |
| intcal13 | The IntCal13 calibration curve |
| intcal13_raw | The raw data for constructing the IntCal13 calibration curve |
| intcal20 | The IntCal20 calibration curve |
| intcal20_raw | The raw data for constructing the IntCal20 calibration curve |
| is_th_reduced_valid | A helper function to determine if the reduced form parameter... |
| load_calib_curve | Load Calibration Curve |
| make_blank_density_plot | Prepare a blank plot for showing densities |
| marine13 | The Marine13 calibration curve |
| marine13_raw | The raw data for constructing the Marine13 calibration curve |
| marine20 | The Marine20 calibration curve |
| phi2tau | Find the calendar date from the fraction modern value given... |
| pipe | Pipe operator |
| plot_50_percent_quantile | Plot the 50 percent quantile curve |
| plot_best_solution | Plot the best model created by do_bayesian_inference |
| plot_known_sim_density | Plot the known simulation density |
| plot_summed_density | Plot the summed probability density function (SPDF) |
| sample_gauss_mix | Sample from a possibly truncated Gaussian mixture |
| sample_theta | Sample from the posterior of a density model for a set of... |
| sample_trunc_exp | Sample from a truncated exponential distribution |
| set_calib_curve | Set the radiocarbon calibration curve for an analysis |
| set_density_model | Set the density model (density_model) for an analysis |
| set_rc_meas | Set the radiocarbon measurements (rc_meas) for an analysis |
| set_sim | Use the results of a simulation to set the radiocarbon... |
| shcal13 | The SHCal13 Southern Hemisphere atmospheric radiocarbon... |
| shcal13_raw | The raw data for constructing the SHCal13 Southern Hemisphere... |
| shcal20 | The SHCal20 Southern Hemisphere atmospheric radiocarbon... |
| shcal20_raw | The raw data for constructing the SHCal20 Southern Hemisphere... |
| simulate_rc_data | Create simulated radiocarbon data |
| summarize_bayesian_inference | Calculate some key summary measures using the result of a... |
| summarize_trunc_gauss_mix_sample | Identify growth periods and the peak value for a truncated... |
| vis_calib_curve | Visualize the calibration curve with equifinal and... |
