Man pages for tidysdm
Species Distribution Models with Tidymodels
| add_member | Add best member of workflow to a simple ensemble |
| add_repeat | Add repeat(s) to a repeated ensemble |
| autoplot.simple_ensemble | Plot the results of a simple ensemble |
| autoplot.spatial_initial_split | Create a ggplot for a spatial initial rsplit. |
| blockcv2rsample | Convert an object created with 'blockCV' to an 'rsample'... |
| boyce_cont | Boyce continuous index (BCI) |
| calib_class_thresh | Calibrate class thresholds |
| check_coords_names | Check that we have a valid pair of coordinate names |
| check_sdm_presence | Check that the column with presences is correctly formatted |
| check_splits_balance | Check the balance of presences vs pseudoabsences among splits |
| clamp_predictors | Clamp the predictors to match values in training set |
| collect_metrics.simple_ensemble | Obtain and format results produced by tuning functions for... |
| conf_matrix_df | Make a confusion matrix dataframe for multiple thresholds |
| control_ensemble | Control wrappers |
| dist_pres_vs_bg | Distance between the distribution of climate values for... |
| explain_tidysdm | Create explainer from your tidysdm ensembles. |
| extrapol_mess | Multivariate environmental similarity surfaces (MESS) |
| filter_collinear | Filter to retain only variables that have low collinearity |
| filter_high_cor | Deprecated: Filter to retain only variables below a given... |
| form_resp | Get the response variable from a formula |
| gam_formula | Create a formula for gam |
| geom_split_violin | Split violin geometry for ggplots |
| grid_cellsize | Get default grid cellsize for a given dataset |
| grid_offset | Get default grid cellsize for a given dataset |
| horses | Coordinates of radiocarbon dates for horses |
| kap_max | Maximum Cohen's Kappa |
| km2m | Convert a geographic distance from km to m |
| lacerta | Coordinates of presences for Iberian emerald lizard |
| lacerta_ensemble | A simple ensemble for the lacerta data |
| lacerta_rep_ens | A repeat ensemble for the lacerta data |
| lacertidae_background | Coordinates of presences for lacertidae in the Iberian... |
| make_mask_from_presence | Make a mask from presence data |
| maxent | MaxEnt model |
| maxent_params | Parameters for maxent models |
| maxnet_fit | Wrapper to fit maxnet models with formulae |
| maxnet_predict | Wrapper to predict maxnet models |
| niche_overlap | Compute overlap metrics of the two niches |
| optim_thresh | Find threshold that optimises a given metric |
| optim_thresh_kap_max | Find threshold that maximises Kappa |
| optim_thresh_sens | Find threshold that gives a target sensitivity |
| optim_thresh_tss_max | Find threshold that maximises TSS |
| out_of_range_warning | Warn if some times are outside the range of time steps from a... |
| pairs-stars | Pairwise matrix of scatterplot for stars objects |
| pipe | Pipe operator |
| plot_pres_vs_bg | Plot presences vs background |
| predict_raster | Make predictions for a whole raster |
| predict.repeat_ensemble | Predict for a repeat ensemble set |
| predict.simple_ensemble | Predict for a simple ensemble set |
| prob_metrics_sf | Probability metrics for 'sf' objects |
| prob_to_binary | simple function to convert probability to binary classes |
| recipe.sf | Recipe for 'sf' objects |
| repeat_ensemble | Repeat ensemble |
| sample_background | Sample background points for SDM analysis |
| sample_background_time | Sample background points for SDM analysis for points with a... |
| sample_pseudoabs | Sample pseudo-absence points for SDM analysis |
| sample_pseudoabs_time | Sample pseudo-absence points for SDM analysis for points with... |
| sdm_metric_set | Metric set for SDM |
| sdm_spec_boost_tree | Model specification for a Boosted Trees model for SDM |
| sdm_spec_gam | Model specification for a GAM for SDM |
| sdm_spec_glm | Model specification for a GLM for SDM |
| sdm_spec_maxent | Model specification for a MaxEnt for SDM |
| sdm_spec_rand_forest | Model specification for a Random Forest for SDM |
| simple_ensemble | Simple ensemble |
| spatial_initial_split | Simple Training/Test Set Splitting for spatial data |
| thin_by_cell | Thin point dataset to have 1 observation per raster cell |
| thin_by_cell_time | Thin point dataset to have 1 observation per raster cell per... |
| thin_by_dist | Thin points dataset based on geographic distance |
| thin_by_dist_time | Thin points dataset based on geographic and temporal distance |
| tidysdm-package | tidysdm: Species Distribution Models with Tidymodels |
| tss | TSS - True Skill Statistics |
| tss_max | Maximum TSS - True Skill Statistics |
| y2d | Convert a time interval from years to days |
