NEWS.md

In enmSdmX: Species Distribution Modeling and Ecological Niche Modeling

enmSdmX 1.2.12 2025-03-29

• Fixed bug that sometimes appeared in coordImprecision() because output included units :(.

enmSdmX 1.2.11 2025-02-19

• Added responseCurves() for easy plotting of model response curves.
• Bug fix: predictEnmSdm() no longer fails for GLMs when newdata has more columns than necessary.
• Bug fix: trainMaxEnt() now removes over-parameterized models (thank you, ML!).
• Bug fix: trainNS() correctly records the scale statistics when argument scale = TRUE.
• Bug fix: trainByCrossValid() no longer crashes when trying to train MaxEnt models (thank you, ML!).

enmSdmX 1.1.9 2024-11-01

• trainGAM() does not include interaction terms if interaction is NULL, and does not fail when interactions are included and the number of predictors is >2 (thank you, P.T.!).

enmSdmX 1.1.8 2024-10-02

• modelSize() can now tell size of a ranger random forest.

enmSdmX 1.1.7 2024-08-02

• Clarified mis-leading help in several functions, including all the trainXYZ() functions (thank you, PT!).

enmSdmX 1.1.6 2024-06-06

• Replaced dependency on MuMIn with one one AICcmodavg for calculation of AICc. Received warning that MuMIn was going to be archived on CRAN.

enmSdmX 1.1.5 2024-05-16

• Added function trainESM() for ensembles of small models.
• Added several UTM coordinate reference systems accessible through getCRS().
• Fixed bug in predictEnmSdm() for predicting kernel density models from the ks package.

enmSdmX 1.1.3 2023-03-06

• trainGLM(), trainNS(), and predictEnmSdm() now have options to automatically center and scale predictors. If a GLM or NS model created using trainGLM() or trainSN() is provided to predictEnmSdm(), it will automatically scale the predictors properly.

enmSdmX 1.1.3 2023-02-02

• Removed dependency on dismo, replaced where possible by predicts; copied gbm.step() and predict() method for MaxEnt to enmSdmX as a momentary fix; would love a professional solution!
• Added European Datum 1950 (ED50) to coordinate reference systems table
• Added ability to export intermediate values for plotting in evalContBoyce()
• Fixed spelling errors in crss data table (coordinate reference system names)

enmSdmX 1.1.2 2023-09-07

• Minor issue fixes with undocumented arguments for non-exported functions
• Bug fix in squareCellRast() that occurred on Linux/Fedora

enmSdmX 1.1.1 2023-06-11

• Backwards incompatible: trainRF() uses ranger package for random forests (changed from randomForest package)
• Backwards incompatible: geoFold() uses complete clustering method by default (changed from single)
• New feature: trainGLM() and trainNS() can automatically scale predictors
• New feature: Reworked trainGLM() to handle cases with large numbers of predictors
• New feature: Added geoFoldContrast() for assigning geo-folds to background or absence sites
• Better functionality: trainRF() now indicates if the response is binary using a binary argument (vs. family, which falsely implied more functionality than RFs have)

enmSdmX 1.0.6 2023-05-22

• Better functionality: Expanded capacity of .calcWeights() (a hidden function) to handle different values for family

enmSdmX 1.0.5 2023-05-12

• new feature: Added help page for troubleshooting running functions that support parallel operation
• Bug fix: predictEnmSdm() when using a BRT model and predicting to a SpatRaster (thank you, Nikki C!)

enmSdmX 1.0.4 2023-04-10

• New feature: Users can select clustering method in geoThin() and geoFold() (thank you, Pascal T!)
• Bug fix: Example in customCRS() when GADM server is down
• Bug fix:geoThin() which returned input if it was a data.frame*
• Bug fix:geoThin() which returned a data.frame lacking coordinates if input was a data.frame (thank you, Pascal T!)

enmSdmX 1.0.3 2023-03-07

• Bug fix: Removed Fedora issue with external link to raster package
• Bug fix: Added rJava dependency

enmSdmX 1.0.2 2023-03-04

• New feature: getCRS() (no arguments) now displays shiny table of all available CRSs
• Bug fix: Fixed issue in nearestGeogPoints() when polygon lay under centroid
• Bug fix: Fixed bug with "table" call of getCRS()

enmSdmX 1.0.1

• New feature: summarizeByCrossValid() now summarizes natural spline (NS) models
• Bug fix: Bug experienced by some users using predictEnmSdm() and predictMaxNet() (Thank you, Nikki!)
• Bug fix: trainByCrossValid() using improper call to evalContBoyce()
• Bug fix: extract() bug in some examples

enmSdmX 1.0.0

• First release on CRAN

enmSdmX documentation built on April 3, 2025, 7:50 p.m.