Files in allanecology/BetaDivMultifun
Testing effects of multitrophic beta-diversity and land-use intensity (LUI) on ecosystem multifunctionality

.Rbuildignore
.gitignore
BetaDivMultifun.Rproj
DESCRIPTION
GDM.R
LICENSE
MAJOR_CLEAN_OCT22.Rmd
NAMESPACE
R/clean_datasets.R R/data.R R/function_imputation.R R/functional_dissimilarity.R R/handling_dataset.R R/isplineExtract.edit.R R/mathfuns.R R/multidiversity.R R/plotUncertainty_getsd_GDM.R R/plot_diagn_gdm.R R/plot_gdm_FUN.R R/plotting.R R/preparing_diversity.R R/setting_environment.R R/useful_functions.R README.Rmd README.md
colord.csv
data/colorder_gdm_input.rda
data/model_names.rda
data/nicenames.rda
data/usefulplotids.rda
inst/extdata/blank-markdown.md man/BetaDivMultifun.Rd man/CompareToReferenceDataset.Rd man/add_back_missing_plots_species_combinations.Rd man/beta.pair.abund_zerospecies.Rd man/beta.pair_zerospecies.Rd man/calc_avg_number_of_biotic_abiotic_drivers_of_single_functions.Rd man/calc_presenceabsence.Rd man/colComb.Rd man/create_abio_barplot.Rd man/create_bio_aboveground_barplot.Rd man/create_bio_belowground_barplot.Rd man/create_gdm_lineplot.Rd man/create_overview_above_below_abiotic_barplot.Rd man/create_overview_barplot.Rd man/create_overview_turnover_nestedness_abiotic_barplot.Rd man/create_overviewbar_restab.Rd man/create_restab.Rd man/create_restab0.Rd man/create_restab2.Rd man/create_restab_3.Rd man/create_single_funs_overviewbar_plot.Rd man/create_single_funs_overviewbars.Rd man/find_and_supplement_missing_plots.Rd man/get_nice_legend.Rd man/get_random_number_from_truncated_normal_dist.Rd man/hedo.Rd man/ksource.Rd man/loadAndCleanEcosystemFunctions.Rd man/loadAndCleanLUI.Rd man/maxx.Rd man/model_names.Rd man/multidiv.Rd man/panel.cor.Rd man/panel.hist.Rd man/paste_gdm_input_path_together.Rd man/perform_missforest_imputations.Rd man/plotUncertainty_getsd.Rd man/plot_diagn_gdm.Rd man/prepare_for_betapair.Rd man/scale01.Rd man/setNonpublicVariables.Rd tests/testthat.R
tests/testthat/data/helper_gdmin.Rds
tests/testthat/test-mathfuns.R tests/testthat/test-plot_GDM.R
vignettes/.gitignore
vignettes/GDM_multifun_thresholds.Rmd vignettes/GDM_predictions.Rmd vignettes/GDM_pvalues_test.R vignettes/GDM_sensitivity_indirect_beta_effects.Rmd vignettes/README_how-to-use-this-package.Rmd
vignettes/README_how-to-use-this-package.html
vignettes/THEORY_simulate_betadiversity.R vignettes/additional_exploratory_analyses/betadiversity_imputation.R vignettes/additional_exploratory_analyses/betadiversity_imputation.Rmd vignettes/additional_exploratory_analyses/check_GDM_input_GAM.Rmd vignettes/additional_exploratory_analyses/explore_functions_dataset.Rmd vignettes/alpha_plots.Rmd vignettes/analysis_nonpublic.R vignettes/calc_LUI.Rmd vignettes/calc_betadiversities.Rmd
vignettes/calc_betadiversities.html
vignettes/calc_covariates.Rmd vignettes/calc_multifun_from_imputed.Rmd vignettes/calc_multifun_from_imputed_additional_sensitivity.R vignettes/check_GDM_diagnostics.Rmd vignettes/check_GDM_input.Rmd vignettes/clean_and_load_soil_covariates.Rmd vignettes/cluster_scripts_documentation.Rmd vignettes/detect_GDM_effect_shape.Rmd vignettes/function_imputation.Rmd vignettes/introductory_plots.Rmd
vignettes/old/.gitignore
vignettes/old/maydelete_explore_diversity_dataset.Rmd vignettes/old/old_gdm_plot.Rmd vignettes/old/old_scripts.md vignettes/package_testing.Rmd vignettes/plot_modelwise_GDM.Rmd vignettes/plot_unique_GDM.Rmd vignettes/prepare_and_run_GDM.Rmd vignettes/quick_singlefunctions_plot.R vignettes/sensitivity_GDM_variable_sequence_does_not_matter.R vignettes/sensitivity_small_extras.Rmd vignettes/single_functions_effect_on_multifunctionality.Rmd vignettes/summarise_GDM_results.Rmd vignettes/suppl_analysis_differences_in_richness.Rmd vignettes/the_analysis_hive.Rmd
allanecology/BetaDivMultifun documentation built on Dec. 3, 2022, 12:30 p.m.