READ ME File For 'Species Distribution Models of the Montane-Specialist Tree Community in Mesoamerica under Climate Change'

Dataset DOI: 10.5258/SOTON/D3468

ReadMe Author: ERIK OMAR MATA GUEL, University of Southampton ORCID ID

This dataset supports the thesis entitled "The Potential Impacts of Climate Change on the Extent, Distribution and Functional Diversity of the Montane-Specialist Tree Community in Mesoamérica"
AWARDED BY: Univeristy of Southampton
DATE OF AWARD: 2025

DESCRIPTION OF THE DATA

This dataset contains the raw occurrence records and the scripts used to submit parallel jobs to an HPC facility through MobaXTerm.

The CSV files contain the raw data used in the analysis and the outputs of the SDM:

1. 'AllSppLocs': occurrence records for the 272 montane-specialist tree species used for SDM analysis
2. 'AllSppFewMany.csv': list of species with their number of records and the batch each one was allocated to for SDM processing (see Chapter 3 Methods in thesis) 
3. 'SI_SDM_projecions.csv'. File containing the outputs of the SDM analysis with the following columns:
   - Species: species name in the format 'Genus.epithet'
   - Records: number of occurrence records used in the SDM per species
   - Distribution: categorical variable of the first-stage latitudinal class of each species
   - ElevClass: categorical variable of the first-stage altitudinal class of each species
   - Loss: number of currently occupied pixels projected to become uoccupied by the end of the century
   - Stable0: number of pixels projected to remain unoccupied by the end of the century
   - Stable1: number of pixels projected to remain occupied by the end of the century
   - Gain: number of currently unoccupied pixels projected to become occupied by the end of the century
   - PercLoss: percentage of currently occupied pixels projected to become unoccupied by the end of the century
   - PercGain: percentage of currently unoccupied pixels projected to become occupied by the end of the century
   - RangeChange: difference between 'PercGain' and 'PercLoss' (negative values)
   - CurrentSize: number of occupied pixels per species under current conditions
   - FutNoDisp: number of occupied pixels per species under future conditions, assuming no dispersal 
   - FutFullDisp: Number of occupied pixels per species under future conditions. assuming no barriers for dispersal
   - ReprojCurr: reprojection of 'CurrentSize' in km2.
   - ReprojFut: reprojection of 'FutFullDisp' in km2
   - ReprojLoss: reprojection of 'Loss' in km2
   - ReprojPercLoss: reprojection of 'PercLoss' in km2 * (-1)

The scripts contain the codes to replicate the analysis described in the thesis.

4. 'SI_SDM_SlurmFile.slurm' & 'SI_SDM_SlurmFile.txt': slurm file to carry out parallel jobs in an HPC facility, available both in .slurm and .txt formats.
5. 'SI_SDM_script.R': parallelised R script to run in an HPC facility with the accompanying .slurm script.
6. 'SI_post-SDM_script.R': script to process raw outputs from SDM in R, including codes to generate map layers, reprojections to a georeferenced grid and statistical analyses. 


Date of data collection: 2022-2024

Information about geographic location of data collection: Mesoamerica (from Mexico below 30° N to the Panama-Colombia border)

Licence:
CC-BY

Related projects/Funders:
National Council of Humanities, Science and Technology (CONAHCYT) of Mexico


Date that the file was created: October, 2024