Package: PointedSDMs 2.1.2.9000
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>.
Authors:
PointedSDMs_2.1.2.9000.tar.gz
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PointedSDMs.pdf |PointedSDMs.html✨
PointedSDMs/json (API)
NEWS
# Install 'PointedSDMs' in R: |
install.packages('PointedSDMs', repos = c('https://philipmostert.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/philipmostert/pointedsdms/issues
- BBSColinusVirginianus - Dataset of Colinus Virginianus obtained from the North American Breeding Bird survey across Alabama state.
- Koala - Dataset of Eucalyptus globulus (common name: blue gum) sightings collected across the Koala conservation reserve on Phillip island (Australia) between 1993 and 2004. Two marks are considered from this dataset: "koala" which describes the number of koala visits to each tree, and "food" which is some index of the palatability of the leaves.
- SetophagaData - List of all data objects used for the Setophaga vignette.
- SolitaryTinamou - List of all data objects used for the solitary tinamou vignette.
Last updated 1 days agofrom:53a56bf02c. Checks:OK: 6 NOTE: 1. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Nov 22 2024 |
R-4.5-win | OK | Nov 22 2024 |
R-4.5-linux | OK | Nov 22 2024 |
R-4.4-win | OK | Nov 22 2024 |
R-4.4-mac | OK | Nov 22 2024 |
R-4.3-win | NOTE | Nov 22 2024 |
R-4.3-mac | OK | Nov 22 2024 |
Exports:blockedCVdataOrganizedataSetdatasetOutfitISDMintModelnearestValuerunModelspecifyISDMspecifyMarksspecifySpeciesstartISDMstartMarksstartSpecies
Dependencies:base64encblockCVclassclassIntclicolorspaceDBIdplyre1071fansifarverfmesherFNNgenericsggplot2gluegtableinlabruisobandKernSmoothlabelinglatticelifecyclemagrittrMASSMatrixMatrixModelsmgcvmunsellnlmepillarpkgconfigplyrproxyR.devicesR.methodsS3R.ooR.utilsR6rasterRColorBrewerRcpprlangs2scalessfspterratibbletidyselectunitsutf8vctrsviridisLitewithrwk
Example of PointedSDMs for the solitary tinamou
Rendered fromSolitary_tinamou.Rmd
usingknitr::rmarkdown
on Nov 22 2024.Last update: 2024-11-22
Started: 2022-04-07
Marked Point Process
Rendered fromMarked_Point_Process.Rmd
usingknitr::rmarkdown
on Nov 22 2024.Last update: 2024-11-22
Started: 2023-01-16
Setophaga example
Rendered fromSetophaga.Rmd
usingknitr::rmarkdown
on Nov 22 2024.Last update: 2024-11-22
Started: 2022-06-08
Spatiotemporal example
Rendered fromSpatiotemporal_example.Rmd
usingknitr::rmarkdown
on Nov 22 2024.Last update: 2024-11-22
Started: 2022-08-16