r-biomod2

Ensemble Platform for Species Distribution Modeling.

Installation

• Stable version from cran :

install.packages("biomod2", dependencies = TRUE)

• Development version from biomodhub :

library(devtools)
devtools::install_github("biomodhub/biomod2", dependencies = TRUE)

biomod 4.2-5 - Modeling options & Tuning Update

! biomod2 4.2-5 is now available on CRAN !

/!\ Please feel free to indicate if you notice some strange new behaviors !

What is changed ?

• modeling options are now automatically retrieved from single models functions, normally allowing the use of all arguments taken into account by these functions
• tuning has been cleaned up, but keep in mind that it is still a quite long running process
• in consequence, BIOMOD_ModelingOptions and BIOMOD_Tuning functions become secundary functions (bm_ModelingOptions and bm_Tuning), and modeling options can be directly built through BIOMOD_Modeling function

What is new ?

• ModelsTable and OptionsBigboss datasets (note that improvement of bigboss modeling options is planned in near future)
• 3 new vignettes have been created :
  • data preparation (questions you should ask yourself before modeling)
  • cross-validation (to prepare your own calibration / validation datasets)
  • modeling options (to help you navigate through the new way of parameterizing single models)

biomod 4.2 - Terra Update

What is changed ?

• biomod2 now relies on the new terra package that aims at replacing rasterand sp.
• biomod2 is still compatible with old format such as RasterStackand SpatialPointsDataFrame.
• biomod2 function will sometimes return SpatRaster from package terra that you can always convert into RasterStack using function stack in raster.

biomod 4.1 is now available

/!\ Package fresh start... meaning some changes in function names and parameters. We apologize for the trouble >{o.o}<
Sorry for the inconvenience, and please feel free to indicate if you notice some strange new behaviors !

What is changed ?

• all code functions have been cleaned, and old / unused functions have been removed
• function names have been standardized (BIOMOD_ for main functions, bm_ for secundary functions)
• parameter names have been standardized (same typo, same names for similar parameters across functions)
• all documentation and examples have been cleaned up

What is new ?

• plot functions have been re-written with ggplot2
• biomod2 website has been created, with proper roxygen2 documentation and help vignettes

But... why ?

• “For every minute spent on organizing, an hour is earned.” — Benjamin Franklin
  • better documentation, better formation, better help provided
  • new improvements to come (update of single models, implementation of abundance models, etc)