PointedSDMs: Fit Models Derived from Point Processes to Species Distributions using 'inlabru'

Integrated species distribution modeling is a rising field in quantitative ecology thanks to significant rises in the quantity of data available, increases in computational speed and the proven benefits of using such models. Despite this, the general software to help ecologists construct such models in an easy-to-use framework is lacking. We therefore introduce the R package 'PointedSDMs': which provides the tools to help ecologists set up integrated models and perform inference on them. There are also functions within the package to help run spatial cross-validation for model selection, as well as generic plotting and predicting functions. An introduction to these methods is discussed in Issac, Jarzyna, Keil, Dambly, Boersch-Supan, Browning, Freeman, Golding, Guillera-Arroita, Henrys, Jarvis, Lahoz-Monfort, Pagel, Pescott, Schmucki, Simmonds and O’Hara (2020) <doi:10.1016/j.tree.2019.08.006>.

Version: 1.1.1
Depends: R (≥ 4.1), stats, methods, ggplot2, inlabru (≥ 2.5)
Imports: R6, sp (≥ 1.4-5), raster, R.devices, blockCV
Suggests: testthat (≥ 3.0.0), USAboundaries, sf, sn, INLA (≥ 21.08.31), rasterVis, ggmap, ggpolypath, RColorBrewer, cowplot, knitr, kableExtra, rmarkdown, spocc, covr
Published: 2022-09-05
Author: Philip Mostert [aut, cre], Bob O'hara [aut]
Maintainer: Philip Mostert <philip.s.mostert at ntnu.no>
BugReports: https://github.com/PhilipMostert/PointedSDMs/issues
License: GPL (≥ 3)
URL: https://github.com/PhilipMostert/PointedSDMs
NeedsCompilation: no
Additional_repositories: https://inla.r-inla-download.org/R/testing
Materials: README NEWS
CRAN checks: PointedSDMs results

Documentation:

Reference manual: PointedSDMs.pdf
Vignettes: Setophaga example
Example of PointedSDMs for the solitary tinamou
Spatiotemporal example

Downloads:

Package source: PointedSDMs_1.1.1.tar.gz
Windows binaries: r-devel: PointedSDMs_1.1.1.zip, r-release: PointedSDMs_1.1.1.zip, r-oldrel: PointedSDMs_1.1.1.zip
macOS binaries: r-release (arm64): PointedSDMs_1.1.1.tgz, r-oldrel (arm64): PointedSDMs_1.1.1.tgz, r-release (x86_64): PointedSDMs_1.1.1.tgz, r-oldrel (x86_64): PointedSDMs_1.1.1.tgz
Old sources: PointedSDMs archive

Reverse dependencies:

Reverse depends: intSDM

Linking:

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