- New visualization function
nicheplot()to visualize suitability across 2 axes #87. - Support for 'modal' value calculations in
ensemble(). - Support for 'superlearner' in
ensemble(). - Support for 'kmeans' derived threshold calculation in
threshold()andpredictor_derivate(). - Support for future processing streamlined. See FAQ section for instructions #18.
- Now overwriting temporary data by default in
predictor_transform()and similar functions. - Minor 🐛 fix related to misaligned thresholds and negative exponential kernels.
- 🔥 🐛 fix for scenario projections that use different grain sizes than for inference.
- Support for carnying over latent spatial effects (
add_latent_spatial()) toscenario()projections. - Convenience functions to remove limits and controls
rm_limits()/rm_control()#121 - 🔥 Enable stars and multi-temporal SpatRaster zones for
scenario()anddistribution()#121
- 🐛 fix for support of factor x continuous variable interaction #131
- Renamed
add_control_extrapolationtoadd_limits_extrapolation(). - 🐛 fix to
engine_gdbalso to support non-linear smooth functions (again). - Small fix to support deprecated
field_occurrencefield invalidatefor convenience. - 🐛 fix that prevented
BARTmodels to be saved/loaded from disk #127. - 🐛 fixes related to
factorhandling for all engines. - 🐛 fixes related to
is_comparable_rasterandadd_predictors/add_predictors_range#130 - 🐛 fix related to
partialforengine_gdband priors
- Add functions that creates HTML file base on
DistributionModel. - Added new engine
engine_scampr()for model-based integration. - Allow projection of models using
method_integration = "predictor"
- Small fixes to ensure
borutafiltering works (again)? - Small fix to parameter in
train()#102 @jeffreyhanson - Small helper function for combining 2 different formula objects
combine_formulas() - Small bug fixes dealing with
scenario()projections and limits, plus unit tests #104 - Bug fixes with adding
predictor_derivate()to scenario predictors and added unit tests #106 - Several fixes related to different engines and priors.
- Changed default output for netcdf files to multidimensional arrays #109
- 🔥 hot fixes for scenario scaling and normalization issue #113
- 🐛 fix so that projection works with different extents than used for inference.
- Switched object structure to
R6throughout for improved data and memory handling #44 - Implemented a convenience function ro remove biodiversity datasets (
rm_biodiversity()).
- Added a logical parameter to
ensemble()enabling compositing of thresholds if set #84 - Support of multi-band rasters in
ensemble()for convenience. - Fix of bug in
threshold()for supplied point data and improved error messages. - Cleaner docs and structure
- Adding
wrap_model/unwrap_modelfunctions - Added default parameters for all ibis specific options #90
- Changing behaviour of weights in
engine_inlabru()#93
- Added default
engine_glm()for dependency-free inference and projection. - Harmonized controls settings and added option to contrain extrapolation
add_control_extrapolation() - Adding a function for temporal interpolation of predictors #52
- Minor corrective fixes and additions to
add_offset(). - Switch to
engine_glm()in many of the unittests for better coverage. - Several bug fixes and improvements in
thin_observations() global,probs, andcentersargument for better control ofthin_observations()- Harmonization of parameters for
spartial()and addressing #80
- Added a small convenience wrapper to add model outputs to another model
add_predictors_model() - Started adding mechanistic SDM vignette #67
- Wrapper for steps implemented via
simulate_population_steps()#68
- Added R-universe installation option as alternative to github #38
- Minor bug fixes in
scenario()object, and MigClim and Kissmig wrappers. - Bug fix related to CRS classes of sp and sf
- Bug fix related to blas.num.threads
- Bug fix that crashed
write_summary()outputs when no prediction was made. - Bug fix related to CRS in
engine_inla() - Bug fix in
engine_stan()related to background layer - Class of biodiversity data is identical for PO and PA
- Bug fix in
built_formula_glmnet()and response - Bug fix in
built_formula_gdb()and response - Each model$biodiversity stores only predictors of current ID
- Bug fix in
built_formula_inla()for INLABRU
- Added new vignette on available functions for data preparation #67
- Addition of small
mask()function that emulates the forterra.
- Small fix to
ensemble()so that ensembles of future scenarios use correct standardization. - Small fix to
threshold()now returning threshold values correctly. - Bug fix and error catching to
distribution()andensemble_partial(),ensemble_spartial() - Further checks added to
check()#45 - Small fix to
alignRasters(). - Small fix to harmonize field_column throughout.
- Improved error messages and handling of formula's.
- Implemented min size constraint (
add_constraint_minsize()) #56 - Added a function for estimating partial effects of ensembles
ensemble_spartial().
- Added warnings and checks for missing crs in supplied layers #65
- Smaller bug and code harmonizations to
ensemble_partial(),partial()andspartial(). - Smaller bug fixes to
threshold()inscenario()projections. - Improved error messages in several functions.
- Further documentation fixes towards CRAN submission #38
- Allow to specify location of biodiversity point records in
threshold().
- Added method proximity to
add_control_bias()to place lower weights on points closer to another. - Added helper functions
get_data()and the option to applythreshold()directly on BiodiversityScenarios. - Added centroid function to BiodiversityScenarios and DistributionModels #29
- Add Error message for background data of different units easier to understand.
- Added warning message to the threshold creation to use independent data where possible.
- Fixed min.cv bug in
threshold()introduced by #17 - Fixed
add_offset()function now also allowing sf objects as input. - Fixed bug with writing outputs in
write_output() - Fixed a bug so that prediction limits work correctly again (
distribution(...,lim = x))
partial_density()function implemented #57- Re-specification of limits with implementation of minimum convex polygon limits to
distribution(). - Added
check()function for assessing assumptions and fits for various objects #45 - Added minor internal helper functions to duplicate
starsobjects viast_rep. - Implemented local limiting factor function (
limiting()) #37
- Further smaller documentation fixes towards a CRAN submission #38
- Bug fix to method
bufferin pseudo-absence settings. - Minor bug fixes to
ensemble()uncertainty calculations.
- Addition of 5 parameter logistic curve offsets with parameter search to
add_offset().
- Further smaller documentation fixes towards a CRAN submission #38
- Bug with with
write_model(), now convertingterraobjects todata.framebetween import/export. - Smaller bug fixes, for example in
similarity(), addition of variable name sanitization to predictors by default.
- Smaller bug fixes with regards to writing outputs and adding pseudo-absences.
- Added short convenience function to convert prediction outputs #48
- Converted from
rastertoterra#17 - Updated and added further unit checks and tests
- Aded Boruta for iterative feature selection of predictor variables.
- Removed Magittr dependency #41
- Smaller improvements to documentation and removing of CRAN preventing function calls.
- Made the separation from hyperparameter search functions clearer and added new option to filter highly correlated covariates via
train().
- Smaller documentation fixes, including to make sure examples and returns are in all exported function documentations.
- Preparation for cran release #38, including fixing some common issues and checks.
- Some smaller bug fixes to
validate()to make Boyce more robust. - Change of the logo. Thanks to @elliwoto
- Added warning to validate call for users to be aware of non-independent validation.
- Further fixes on github actions and tests by @mhesselbarth
- Initial public release version! Finding and fixing further bugs...