Ppgm: an R package for integrating neontological, palaeontological, and climate data in a phylogenetic comparative framework

Understanding how changes in climate affect habitat availability for species through time is critical for macroevolutionary, ecological, and conservation research. When combined with palaeoclimate reconstructions, the fossil record provides insights into how species’ geographic distributions have responded to past climate shifts, including under non-analogous climate conditions. PalaeoPhyloGeographic Models (PPGM) offer a framework to integrate modern and palaeontological data into phylogenetic comparative analyses of species climate tolerances. The ppgm R package is an implementation of PPGM, which estimates species climate envelopes, reconstructs ancestral climatic tolerances across phylogenies, and projects these onto palaeoclimate maps to identify climatically available regions through time. The package also supports direct inclusion of fossil occurrences with associated palaeoclimate data, allowing a reconstruction of past trends of species climate tolerances projected into palaeoc..., , # Data from: Ppgm: an R package for integrating neontological, palaeontological, and climate data in a phylogenetic comparative framework

## author: Alexandra FC Howard

## date: 2025-10-31

### Supplementary Files

This folder contains the supplementary files for the paper \"ppgm: an R package for integrating neontological, palaeontological, and climate data in a phylogenetic comparative framework\". Howard, AFC; Hurtado-Materon, MA; Rivera, JA; Zuniga-Vega, JJ; Martins, EM; Lawing, AM.

Both .rda files can be found at the Supplemental Information link in the Related Works

### Contents

* **simulations.R** - code for performing simulations in paper (see notes within script for further information)
* **examples.R** - code for in-text examples (see notes within script for further information)
* **pantherophis_occurrences.rda** - data frame containing *Pantherophis* occurrences from GBIF (accessed 26 April 2024, doi:[https://doi.org/10.15468/dl.dyh8c7](https://doi.org/10.15468/dl.dyh8c7))...,