ppgm: PaleoPhyloGeographic Modeling of Climate Niches and Species
Distributions
Reconstruction of paleoclimate niches using phylogenetic comparative
methods and projection reconstructed niches onto paleoclimate maps.
The user can specify various models of trait evolution or estimate the best fit
model, include fossils, use one or multiple phylogenies for inference, and make
animations of shifting suitable habitat through time. This model was first used
in Lawing and Polly (2011), and further implemented in Lawing et al (2016) and
Rivera et al (2020).
Lawing and Polly (2011) <doi:10.1371/journal.pone.0028554> "Pleistocene climate,
phylogeny and climate envelope models: An integrative approach to better
understand species' response to climate change"
Lawing et al (2016) <doi:10.1086/687202> "Including fossils in phylogenetic
climate reconstructions: A deep time perspective on the climatic niche evolution
and diversification of spiny lizards (Sceloporus)"
Rivera et al (2020) <doi:10.1111/jbi.13915> "Reconstructing historical shifts
in suitable habitat of Sceloporus lineages using phylogenetic niche modelling.".
| Version: |
1.1 |
| Depends: |
R (≥ 4.4.0), R (≥ 2.10), sp, sf |
| Imports: |
ape, fields, geiger, gifski, methods, phangorn, phytools, stringi, parallel, doParallel, foreach |
| Suggests: |
knitr, rmarkdown, testthat (≥ 3.0.0) |
| Published: |
2025-03-12 |
| DOI: |
10.32614/CRAN.package.ppgm |
| Author: |
A. Michelle Lawing [aut, cph],
Alexandra Howard [aut, cre],
Maria-Aleja Hurtado-Materon [aut] |
| Maintainer: |
Alexandra Howard <alexandra.howard at ag.tamu.edu> |
| License: |
GPL (≥ 3) |
| NeedsCompilation: |
no |
| Materials: |
README, NEWS |
| In views: |
Paleontology |
| CRAN checks: |
ppgm results |
Documentation:
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