PhyloPapers 2025, Summary

Links to all sessions for the class
phylopapers
phylogenetics
teaching
Author

Brian O’Meara

Published

December 1, 2025

Class is finished! A mixture of grad students, postdocs, and faculty attended the sessions. Students taking it for credit were asked on the eve of each class:

I would use this info to tune what I covered in the intro for each class session. People brought a range of experience to the class, and I wanted to structure it so that everyone would learn a bit within each class session. Below are links to the posts for each week’s reading (slides, reflections on the paper, etc.):

Each week I’d decide on a topic, then look on OpenAlex, Google Scholar, and sometimes various journal websites for recent (only 2025) papers relevant to the topic. I would then read through these to find a paper that I thought would be useful for teaching, including whether I thought it was a good example of what to do (all papers have compromises, but I think students learn more from “good” papers than from ripping apart “bad” papers). I chose not to limit the papers only to ones in DAFNEE journals or only papers that are open access. There are issues with the publishing ecosystem, but for this class using that to limit papers would have resulted in too small a pool of papers this semester.

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Citation

BibTeX citation:
@online{o'meara2025,
  author = {O’Meara, Brian},
  title = {PhyloPapers 2025, {Summary}},
  date = {2025-12-01},
  url = {https://brianomeara.info/posts/phylopapers_2025_summary/},
  langid = {en}
}
For attribution, please cite this work as:
O’Meara, Brian. 2025. “PhyloPapers 2025, Summary.” December 1, 2025. https://brianomeara.info/posts/phylopapers_2025_summary/.