Changelog

Source: NEWS.md

flexsdm 1.3.8

• fit_, tune_, esm_ and fit_ensemble functions now return a performance table for each partition and replicate (performance_part), by @sjevelazco #432 and 434
• p_pdp was improved to depict exactly training range values when projection data are used, by @sjevelazco #429
• sample_pseudoabs a sample approach was implemented based on environmental K-means, by @sjevelazco #410
• sample_pseudoabs K-means step was improved for the geo_env_km_const approach, by @sjevelazco #410
• p_extra Now can handle binary maps to plot suitability or extrapolation values in the geographical or environmental space, by @sjevelazco 418
• map_env_dist This new function calculates environmental distance between presences and projection data. Only the nearest Gower distance was implemented (Domain algorithm), by @sjevelazco 419
• fit_dom This is a new function to fit and validate the Domain algorithm, by @sjevelazco

flexsdm 1.3.6

• occfilt_geo adapted to test different values for the three methods by @sjevelazco in 386
• occfilt_env now can filter with several bins by @sjevelazco in 388
• occfilt_select was created and a test protocol was written by @sjevelazco in 389
• occfit_select included in vignette and website by @sjevelazco in 390
• mean change in sdm_predict to handle 0 weight value for weighted mean by @sjevelazco in 391
• documentation of occfilt_select was improved by @sjevelazco in 392
• It is possible to tune ntree hyperparameter of random forest algorithm by @sjevelazco in 393
• correct_colinvar can be used with species points by @sjevelazco in 394
• Update pkg_citation.md by @mrose048 in 396
• sdm_varimp was added and tested by @mrose048 and @sjevelazco in 399
• min change in warning message calib_area by @sjevelazco in 400

flexsdm 1.3.4-5

• min change in interp function by @sjevelazco in 362
• min change in occfilt_geo by @sjevelazco in 364
• Rlof was removed from dependencies by @sjevelazco in 365
• min change in occfilt_geo by @sjevelazco in 370
• new argument in occfilt_geo by @sjevelazco in 371
• esm_ functions were improved by @sjevelazco in 373 & 373
• geographically constraint cell of env_var argument in correct_colinvar by @sjevelazco in 374
• new argument in correct_colinvar by @sjevelazco in 375
• calib_area was sped up by @sjevelazco in 377
• correct_colivar was fixed and improved, FA method by @sjevelazco in 383
• occfilt_geo ‘defined’ method was fixed by @sjevelazco in 384

flexsdm 1.3.4

• it is possible to restrict the cell used to perform collinearity reduction analysis to a geographical area smaller than the full extent of environmental variables in correct_clinvar()
• esm_ family function was improved and debugged
• occfilt_geo has a new argument “rep” to control number o repetition to filter occurrences

flexsdm 1.3.4

• rgeos was removed from dependencies #356
• New vignette about how use different tools to explore model extrapolation and truncate models was added #352
• Univariate and combinatorial extrapolation metric added to extra_eval.
• Minor bugs were fixed to project PCA for other time periods #351
• Best grid raster names was changed to .part in part_sblock and part_sband
• Improvements in correct_colinvar to speed up function when using maxcell argument
• Improvements in correct_colinvar to project PCA for other time periods

flexsdm 1.3.3

• Improvements in correct_colinvar It is now possible to sample rasters to reduce machine memory and speed up the process
• Improvements in sdm_predict It is possible predict model in chunks to reduce machine memory
• p_extra, p_pdp, and p_bpdp were fixed
• New function p_bpdp Bivariate Partial Dependent Plot
• New function data_bpdp Calculate data to construct bivariate partial dependence plots
• Improvements in p_dpd Calculate data to construct partial dependence plots

flexsdm 1.3.2

• New function p_extra Graphical exploration of extrapolation or suitability pattern in the environmental and geographical space
• New function p_pdp Partial Dependent Plot
• New function data_pdp Calculate data to construct partial dependence plots

flexsdm 1.3.1

• New argument “crs” added to function msdm_posteriori
• New argument “sp_name” in sample_background and sample_pseudoabs
• raster, flexclust, ape, and sp were removed from dependencies
  
• Functions using CRS data have improved codes
• It is possible use a numeric value to specify threshold in msdm_posteriori
• extra_eval can use tibble or SpatRaster object in env_calib argument
• extra_truncate has a new argument to define values used for model truncation and documentation was improved. #