Files in Neves-P/islandpaleoarea
Paleo-Area Influence on Island Evolutionary Models
.Rbuildignore
.github/.gitignore
.github/workflows/R-CMD-check.yaml
.github/workflows/test-coverage.yaml
.gitignore
.zenodo.json
DESCRIPTION
LICENSE.md
NAMESPACE
NEWS.md
R/calc_bic.R
R/calc_bic_weight.R
R/data.R
R/default_params_doc.R
R/facet_archipelagos.R
R/get_base_rates.R
R/islandpaleoarea-package.R
R/plot_area_time.R
R/plot_line_estimates.R
R/plot_model_sel_time.R
R/plot_res_area.R
R/read_results.R
R/save_paper_plot.R
R/setup_mw_model.R
R/setup_mw_model_fixed_pars.R
R/translate_mw_params.R
README.md
bash/install_islandpaleoarea.sh
bash/submit_nature_ml.sh
bash/submit_paleo_ml.sh
bash/submit_paleo_ml_minus_outliers.sh
bash/submit_paleo_ml_regular.sh
bash/submit_paleo_ml_regular_minus_arch.sh
bash/submit_paleo_ml_regular_prev_time.sh
bash/submit_paleo_model_ml.sh
bash/submit_paleo_model_ml_regular.sh
data-raw/arch_coordinates.R
data-raw/archipelagos41_paleo.R
data-raw/area_database.R
data-raw/dataset_comparison.R
data-raw/ordered_results_nature_current.R
data-raw/ordered_results_paleo.R
data-raw/ordered_results_paleo_minus_outliers.R
data-raw/results_nature_current.R
data-raw/results_paleo.R
data-raw/results_paleo_minus_outliers.R
data/arch_coordinates.rda
data/archipelagos41_paleo.rda
data/area_database.rda
data/dataset_comparison.rda
data/ordered_results_nature_current.rda
data/ordered_results_paleo.rda
data/ordered_results_paleo_minus_outliers.rda
data/results_nature_current.rda
data/results_paleo.rda
data/results_paleo_minus_outliers.rda
doc/assorted_notes.Rmd
doc/assorted_notes.nb.html
figures/area_sd_ratio_17.pdf
figures/area_sd_ratio_17.png
figures/area_sd_ratio_18.pdf
figures/area_sd_ratio_18.png
figures/area_sd_ratio_19.pdf
figures/area_sd_ratio_19.png
figures/box_plot.pdf
figures/box_plot.png
figures/box_plot_minus_outliers.pdf
figures/box_plot_minus_outliers.png
figures/combined_19_1.pdf
figures/combined_1_m_17.pdf
figures/combined_1_m_17.png
figures/combined_1_m_18.pdf
figures/combined_1_m_18.png
figures/combined_1_m_19.pdf
figures/combined_1_m_19.png
figures/combined_1_minus_outliers_m_17.pdf
figures/combined_1_minus_outliers_m_17.png
figures/combined_1_minus_outliers_m_18.pdf
figures/combined_1_minus_outliers_m_18.png
figures/combined_1_minus_outliers_m_19.pdf
figures/combined_1_minus_outliers_m_19.png
figures/combined_2_m_17.pdf
figures/combined_2_m_17.png
figures/combined_2_m_18.pdf
figures/combined_2_m_18.png
figures/combined_2_m_19.pdf
figures/combined_2_m_19.png
figures/combined_2_minus_outliers_m_17.pdf
figures/combined_2_minus_outliers_m_17.png
figures/combined_2_minus_outliers_m_18.pdf
figures/combined_2_minus_outliers_m_18.png
figures/combined_2_minus_outliers_m_19.pdf
figures/combined_2_minus_outliers_m_19.png
figures/combined_3_m_17.pdf
figures/combined_3_m_17.png
figures/combined_3_m_18.pdf
figures/combined_3_m_18.png
figures/combined_3_m_19.pdf
figures/combined_3_m_19.png
figures/combined_3_minus_outliers_m_17.pdf
figures/combined_3_minus_outliers_m_17.png
figures/combined_3_minus_outliers_m_18.pdf
figures/combined_3_minus_outliers_m_18.png
figures/combined_3_minus_outliers_m_19.pdf
figures/combined_3_minus_outliers_m_19.png
figures/combined_4_m_17.pdf
figures/combined_4_m_17.png
figures/combined_4_m_18.pdf
figures/combined_4_m_18.png
figures/combined_4_m_19.pdf
figures/combined_4_m_19.png
figures/combined_4_minus_outliers_m_17.pdf
figures/combined_4_minus_outliers_m_17.png
figures/combined_4_minus_outliers_m_18.pdf
figures/combined_4_minus_outliers_m_18.png
figures/combined_4_minus_outliers_m_19.pdf
figures/combined_4_minus_outliers_m_19.png
figures/combined_diff.pdf
figures/combined_diff.png
figures/combined_diff_log10.pdf
figures/combined_log10.pdf
figures/combined_ratio.pdf
figures/combined_ratio.png
figures/combined_ratio_log10.pdf
figures/galapagos_lord_howe.pdf
figures/galapagos_lord_howe.png
figures/hyperpars_area_sd_area_ratio_17.pdf
figures/hyperpars_area_sd_area_ratio_17.png
figures/hyperpars_area_sd_area_ratio_18.pdf
figures/hyperpars_area_sd_area_ratio_18.png
figures/hyperpars_area_sd_area_ratio_19.pdf
figures/hyperpars_area_sd_area_ratio_19.png
figures/hyperpars_area_sd_area_ratio_minus_outliers_17.pdf
figures/hyperpars_area_sd_area_ratio_minus_outliers_17.png
figures/hyperpars_area_sd_area_ratio_minus_outliers_18.pdf
figures/hyperpars_area_sd_area_ratio_minus_outliers_18.png
figures/hyperpars_area_sd_area_ratio_minus_outliers_19.pdf
figures/hyperpars_area_sd_area_ratio_minus_outliers_19.png
figures/m19_pars_hyperpars.pdf
figures/m19_pars_hyperpars.png
figures/m19_pars_hyperpars_minus_outliers.pdf
figures/m19_pars_hyperpars_minus_outliers.png
figures/m_16_plot.pdf
figures/m_16_plot.png
figures/m_17_plot.pdf
figures/m_17_plot.png
figures/m_18_plot.pdf
figures/m_18_plot.png
figures/m_19_plot.pdf
figures/m_19_plot.png
figures/model_sel_plots.pdf
figures/model_sel_plots.png
figures/rates_areas_plots.pdf
figures/rates_areas_plots.png
figures/rates_areas_plots_minus_outliers.pdf
figures/rates_areas_plots_minus_outliers.png
figures/ratios_line.pdf
figures/ratios_line.png
figures/ratios_line_minus_outliers.pdf
figures/ratios_line_minus_outliers.png
inst/extdata/arch_coordinates.csv
inst/extdata/area_cutler20220211.csv
inst/extdata/area_cutler_distortion20220211.csv
inst/extdata/dataset_comparison.csv
islandpaleoarea.Rproj
man/archipelagos41_paleo.Rd
man/area_database.Rd
man/calc_bic.Rd
man/calc_bic_weights.Rd
man/default_params_doc.Rd
man/facet_archipelagos.Rd
man/get_base_rates.Rd
man/islandpaleoarea-package.Rd
man/plot_area_time.Rd
man/plot_line_estimates.Rd
man/plot_model_sel_time.Rd
man/plot_res_area.Rd
man/read_results.Rd
man/save_paper_plot.Rd
man/setup_mw_model.Rd
man/setup_mw_model_fixed_pars.Rd
man/translate_mw_params.Rd
scripts/analysis.R
scripts/dataset_comparison.R
scripts/galapagos_lord_howe_plots.R
scripts/hyperpars_area_sd.R
scripts/hyperpars_area_sd_minus_outliers.R
scripts/individual_archipelago_plots.R
scripts/individual_archipelago_plots_minus_outliers.R
scripts/line_plots.R
scripts/loglik_plots.R
scripts/model_sel_plots.R
scripts/nature_ml.R
scripts/paleo_ml.R
scripts/paleo_ml_minus_arch.R
scripts/paleo_ml_minus_outliers.R
scripts/paleo_ml_prev_time.R
scripts/paleo_model_ml.R
scripts/paper_plots.R
scripts/paper_plots_minus_outliers.R
scripts/plot_base_rates.R
scripts/rates_areas_plots_minus_outliers.R
scripts/results_latex_table.R
tests/testthat.R
tests/testthat/test-setup_mw_model.R
