Home - UMEcolGenetics/PawPawPulation-Genetics GitHub Wiki
Welcome to the PawPawPulation wiki!
This repository contains general examples of commonly used ecological genetic methods, a meta-methods-review repository of sorts. Workflows and softwares commonly used in ecological genetics research are demonstrated here. The purpose in designing this directory was to establish a one-stop-shop for anyone looking to familiarize themselves with ecological genetic methods and for those considering what analyses to use in their research.
This repo was built out by graduate students/candidates at the University of Memphis as part of their final Ecological Genetics course (BIOL 8752/7752) during Fall 2021.
We chose to work with a publicly available raw microsatellite dataset of the North American native fruit tree Asimina triloba for each analysis demonstrated1. Some students in the course were particularly excited to use this dataset in order to bring attention to this endemic fruit of Memphis. Pawpaws are especially common in the Overton Park forest understory, a unique 140+ acre tract of urban old growth in the Southeast US. Additionally, several pawpaw sampling sites were taken from sites nearby Memphis.
Microsatellite data was downloaded from Dryad2. The dataset includes two population types: wild and anthropogenic. There are a total of 82 populations: 20 anthropogenic and 62 wild.
We want to make it super-easy for PawPawPulation users and contributors to talk to us and connect with each other, to share ideas, solve problems and help make PawPawPulaion an awesome resource. Please feel free to message us directly
If you spot any issues please raise an issue in the GitHub repository of the analysis in question. Furthermore if you have run an analysis not detailed here or you have improved an existing workflow, with the pawpaw data, please open a pull request and we'll be glad to consider your analysis for integration in the project!
[1] Wyatt, G.E., Hamrick, J.L., and Trapnell, D.W. (2021). The role of anthropogenic dispersal in shaping the distribution and genetic composition of a widespread North American tree species. Ecology and Evolution, 11(16): 11515–11532. https://doi.org/10.1002/ece3.7944.
[2] Trapnell, D. W., Wyatt, G. E., and Hamrick, J. L. (2021). Asimina triloba genetic data. Dryad. https://doi.org/10.5061/dryad.5x69p8d3g.
