Files in eehh-stanford/baydem
Bayesian Tools for Reconstructing Past and Present Demography

.Rbuildignore

.gitignore

.pre-commit-config.yaml

.travis.yml

CODE_OF_CONDUCT.md

DESCRIPTION

Dockerfile

LICENSE

LICENSE.md

NAMESPACE

R/bayesian_inference_functions.R R/bd_data.R R/data_io_functions.R R/exponential_model_functions.R R/gaussian_mixture_model_functions.R R/identifiability_functions.R R/max_lik_fitting_functions.R R/plotting_functions.R R/radiocarbon_functions.R R/simulation_functions.R R/utils-pipe.R README.md

_pkgdown.yml

baydem.Rproj

codecov.yml

codemeta.json

data-raw/data.R

data-raw/intcal13.14c

data-raw/intcal13_raw.xlsx

data-raw/intcal20.14c

data-raw/intcal20_raw.xlsx

data-raw/marine13.14c

data-raw/marine13_raw.xlsx

data-raw/marine20.14c

data-raw/shcal13.14c

data-raw/shcal13_raw.xlsx

data-raw/shcal20.14c

data-raw/shcal20_raw.xlsx

data/intcal13.rda

data/intcal13_raw.rda

data/intcal20.rda

data/intcal20_raw.rda

data/marine13.rda

data/marine13_raw.rda

data/marine20.rda

data/shcal13.rda

data/shcal13_raw.rda

data/shcal20.rda

data/shcal20_raw.rda

docs/404.html

docs/CODE_OF_CONDUCT.html

docs/LICENSE-text.html

docs/LICENSE.html

docs/articles/index.html

docs/articles/standard_pipeline.html

docs/articles/standard_pipeline_files/figure-html/unnamed-chunk-14-1.png

docs/articles/standard_pipeline_files/figure-html/unnamed-chunk-29-1.png

docs/authors.html

docs/bootstrap-toc.css

docs/bootstrap-toc.js

docs/docsearch.css

docs/docsearch.js

docs/index.html

docs/link.svg

docs/pkgdown.css

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/add_shaded_quantiles.html

docs/reference/assess_calib_curve_equif.html

docs/reference/bd_add_shaded_quantiles.html

docs/reference/bd_analyze_soln.html

docs/reference/bd_assess_calib_curve_equif.html

docs/reference/bd_calc_calib_curve_equif_dates.html

docs/reference/bd_calc_calib_curve_frac_modern.html

docs/reference/bd_calc_gauss_mix_pdf.html

docs/reference/bd_calc_gauss_mix_pdf_mat.html

docs/reference/bd_calc_half_life_from_peak.html

docs/reference/bd_calc_meas_matrix.html

docs/reference/bd_calc_quantiles.html

docs/reference/bd_calc_relative_density.html

docs/reference/bd_calc_trapez_weights.html

docs/reference/bd_convert_gauss_mix_param_list_to_vect.html

docs/reference/bd_convert_gauss_mix_param_vect_to_list.html

docs/reference/bd_do_inference.html

docs/reference/bd_draw_rc_meas_using_date.html

docs/reference/bd_extract_param.html

docs/reference/bd_load_calib_curve.html

docs/reference/bd_make_blank_density_plot.html

docs/reference/bd_norm_pdf_mat.html

docs/reference/bd_phi2tau.html

docs/reference/bd_phi2y.html

docs/reference/bd_plot_50_percent_quantile.html

docs/reference/bd_plot_known_sim_density.html

docs/reference/bd_plot_summed_density.html

docs/reference/bd_sample_gauss_mix.html

docs/reference/bd_sample_trunc_exp.html

docs/reference/bd_summarize_trunc_gauss_mix_sample.html

docs/reference/bd_vis_calib_curve.html

docs/reference/calc_calib_curve_equif_dates.html

docs/reference/calc_calib_curve_frac_modern.html

docs/reference/calc_gauss_mix_pdf.html

docs/reference/calc_gauss_mix_pdf_mat.html

docs/reference/calc_half_life_from_peak.html

docs/reference/calc_meas_matrix.html

docs/reference/calc_quantiles.html

docs/reference/calc_relative_density.html

docs/reference/calc_tau_range.html

docs/reference/calc_trapez_weights.html

docs/reference/calc_trunc_gauss_mix_neg_log_lik.html

docs/reference/do_bayesian_inference.html

docs/reference/do_bayesian_summary.html

docs/reference/do_max_lik_fits.html

docs/reference/draw_rc_meas_using_date.html

docs/reference/extract_param.html

docs/reference/figures/README-pressure-1.png

docs/reference/fit_trunc_gauss_mix.html

docs/reference/get_best_K.html

docs/reference/import_rc_data.html

docs/reference/index.html

docs/reference/init_trunc_gauss_mix.html

docs/reference/intcal13.html

docs/reference/intcal13_raw.html

docs/reference/intcal20.html

docs/reference/intcal20_raw.html

docs/reference/is_th_reduced_valid.html

docs/reference/load_calib_curve.html

docs/reference/make_blank_density_plot.html

docs/reference/marine13.html

docs/reference/marine13_raw.html

docs/reference/marine20.html

docs/reference/phi2tau.html

docs/reference/pipe.html

docs/reference/plot.bd_analysis.html

docs/reference/plot_50_percent_quantile.html

docs/reference/plot_best_solution.html

docs/reference/plot_known_sim_density.html

docs/reference/plot_summed_density.html

docs/reference/sample_gauss_mix.html

docs/reference/sample_theta.html

docs/reference/sample_trunc_exp.html

docs/reference/set_calib_curve.html

docs/reference/set_density_model.html

docs/reference/set_rc_meas.html

docs/reference/set_sim.html

docs/reference/shcal13.html

docs/reference/shcal13_raw.html

docs/reference/shcal20.html

docs/reference/shcal20_raw.html

docs/reference/simulate_rc_data.html

docs/reference/summarize_bayesian_inference.html

docs/reference/summarize_trunc_gauss_mix_sample.html

docs/reference/vis_calib_curve.html

inst/extdata/fraction_modern_named_columns.csv

inst/extdata/rc_years_BP_named_columns.csv

inst/stan/gaussmix.stan

inst/stan/gaussmix_masked.stan

man/add_shaded_quantiles.Rd man/assess_calib_curve_equif.Rd man/calc_calib_curve_equif_dates.Rd man/calc_calib_curve_frac_modern.Rd man/calc_gauss_mix_pdf.Rd man/calc_gauss_mix_pdf_mat.Rd man/calc_half_life_from_peak.Rd man/calc_meas_matrix.Rd man/calc_quantiles.Rd man/calc_relative_density.Rd man/calc_tau_range.Rd man/calc_trapez_weights.Rd man/calc_trunc_gauss_mix_neg_log_lik.Rd man/do_bayesian_inference.Rd man/do_bayesian_summary.Rd man/draw_rc_meas_using_date.Rd man/extract_param.Rd

man/figures/README-pressure-1.png

man/fit_trunc_gauss_mix.Rd man/import_rc_data.Rd man/init_trunc_gauss_mix.Rd man/intcal13.Rd man/intcal13_raw.Rd man/intcal20.Rd man/intcal20_raw.Rd man/is_th_reduced_valid.Rd man/load_calib_curve.Rd man/make_blank_density_plot.Rd man/marine13.Rd man/marine13_raw.Rd man/marine20.Rd man/phi2tau.Rd man/pipe.Rd man/plot_50_percent_quantile.Rd man/plot_best_solution.Rd man/plot_known_sim_density.Rd man/plot_summed_density.Rd man/sample_gauss_mix.Rd man/sample_theta.Rd man/sample_trunc_exp.Rd man/set_calib_curve.Rd man/set_density_model.Rd man/set_rc_meas.Rd man/set_sim.Rd man/shcal13.Rd man/shcal13_raw.Rd man/shcal20.Rd man/shcal20_raw.Rd man/simulate_rc_data.Rd man/summarize_bayesian_inference.Rd man/summarize_trunc_gauss_mix_sample.Rd man/vis_calib_curve.Rd setup.R tests/testthat.R tests/testthat/test-function.R tests/testthat/test-unit.R vignettes/standard_pipeline.Rmd

eehh-stanford/baydem documentation built on June 3, 2024, 5:46 p.m.

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eehh-stanford/baydem
Bayesian Tools for Reconstructing Past and Present Demography

Files in eehh-stanford/baydem
Bayesian Tools for Reconstructing Past and Present Demography

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eehh-stanford/baydem Bayesian Tools for Reconstructing Past and Present Demography

Files in eehh-stanford/baydem Bayesian Tools for Reconstructing Past and Present Demography

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eehh-stanford/baydem
Bayesian Tools for Reconstructing Past and Present Demography

Files in eehh-stanford/baydem
Bayesian Tools for Reconstructing Past and Present Demography