Files in allanecology/multiFunBetadivLuiGDM
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/BEplotZeros .R
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_DEPRECATED.R
R/plotUncertainty_slim_GDM.R
R/plot_diagn_gdm.R
R/plot_gdm_FUN.R
R/plot_multifun_thresholds.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/BEplotZeros.Rd
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_gdm_lineplot_predictorwise_thresholds.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_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/isplineExtract.edit.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/plotUncertainty_slim.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/additional_assess_lanscape_variables.Rmd
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/diversity_dataset_update.R
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
