NEWS.md
In ENMTools: Analysis of Niche Evolution using Niche and Distribution Models

ENMTools 1.x

Updated Readme file
Fixes to new maxent interface

Updated the entire package to use terra instead of raster
Numerous other bug fixes and behind-the-scenes improvements

Fixed issues with background buffer when mask and points didn't overlap
Added citation for breadth measurements

Permutations for background tests were selecting presences from both species' ranges, leading to incorrect values for hypothesis tests.

Raes and ter Steege-style tests were returning incorrect evaluate objects, although plots and p values were correct
test.prop = "block" wasn't working correctly

Suppressing maxent startup messages by default
Added support for bias layers to modeling functions
Added check.env function to homogenize raster stacks so NAs propagate across layers

Brought up to date for new spatstat changes
Removed ppmlasso until it is brought back on CRAN

Added a new general-purpose function for making background layers from point data. It can do both circular buffers and buffered convex hulls, and can return points, a polygon, or a raster. Converted the existing background buffer functions to just call this one, and will eventually deprecate the single-application functions.
Added ability to select which corner you want for "block" validation.
Added a function called multi.variogram which takes a raster stack, builds a variogram for each layer, and then plots the gamma for each variable as a function of distance, scaled by the maximum gama for that variable. This allows users to get some idea of the level of spatial autocorrelation in each predictor variable.

Minor update to fix an rgdal import that was making CRAN angry

Minor update to fix an rgdal import that was making CRAN angry

Added variable importance tests via interface with the vip package
Added clamping for the predict functions, including plots of where clamping is happening
Added clamping for model construction functions, with a TRUE/FALSE switch defaulting to TRUE
Changed naming conventions for predict functions so that the suitability raster is in the $suitability slot, just as with modeling functions
Added progress bars for a lot of tests
Added “verbose” option for a lot of functions, defaulting to FALSE

Fixed interactive.plot generic and moved the function to its own file to make it easier to extend
Temporarily suppressing some warnings coming out of leaflet that are being produced by the recent rgdal changes
Fixed background sampling code to resample when necessary
Changed enmtools.ranger demo code to actually use ranger instead of rf
Fixed code for calculating p values for some of the hypothesis tests, the old code was getting wrong answers when there were repeated values

Initial CRAN release

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ENMTools documentation built on April 11, 2023, 6:09 p.m.

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