iiinova — where your digital self keeps evolving

Josef Uyeda @pseudacris.bsky.social · 03/10/2025

The pattern on the back of this Nepenthes pitcher plant takes me back to playing MS-DOS games in the 90s.

Josef Uyeda @pseudacris.bsky.social · 11/09/2025

“There’s a hyperparasitoid (Hypopteromalus tabacum) on a parasitoid (Cotesia congregata) on a Sphinx (Ceratomi catalpae) on a tree (Catalpa sp.) by the pond in the middle of VT.” Fun find this week. My mind is all children’s songs these days but the lyrics might need some work….

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Josef Uyeda @pseudacris.bsky.social · 10/07/2025

To Craig's point, I always bring up the CRAZY stat buried in Morgan et al. '22: Babies of profs become faculty ~9.5% of the time, while the overall prob a STUDENT IN A PHD becomes faculty = ~12%. One would hope ≥20 years of work & commitment toward a goal puts you far ahead of babies, but no.

Combining these quantities, we estimate that the probability of becoming a faculty member given that one’s parents hold a Ph.D.
is 9.5%, indicating a strong degree of both educational heritability and substantial professional advantage.

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Josef Uyeda @pseudacris.bsky.social · 16/06/2025

Had a wonderful group for our 2025 EQG workshop at Mountain Lake Biological Station! Huge thanks to the instructors, participants, and station staff for helping us pull this off! If you're interested in what we talked about, materials available here: eqgw.github.io/2025/schedul...

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Josef Uyeda @pseudacris.bsky.social · 21/05/2025

6. Less broadly applicable, but layeranalyzer (Reitan & Liow, 2019; 17 cits). This isn't phylogenetic but great for macroevolutionary timeseries when you want to test for correlative or causal connections between variables. besjournals.onlinelibrary.wiley.com/doi/full/10....

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Josef Uyeda @pseudacris.bsky.social · 21/05/2025

5. This one isn't really undercited, but Phylogenetically aligned component analysis by Collyer & Adams (2020, 64 cits) is a beautiful method we're finding very useful in the lab. Again, something that may be more what you want than PCAs. besjournals.onlinelibrary.wiley.com/doi/full/10....

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Josef Uyeda @pseudacris.bsky.social · 21/05/2025

4. Another Michael Grundler hit, Grundler & Rabosky 2020 (24 cits) for multivariate count data. academic.oup.com/sysbio/artic...

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Josef Uyeda @pseudacris.bsky.social · 21/05/2025

3. The OG unappreciated PCM: SLOUCH (Hansen et al. 2008, 403 cits) now w/FAST mvSLOUCH (Bartoszek et al. 2024, 4 cits) and a GREAT Bayesian version w/new models, "blouch" (Grabowski et al. 2024, 1 cit). academic.oup.com/sysbio/artic... besjournals.onlinelibrary.wiley.com/doi/full/10....

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Josef Uyeda @pseudacris.bsky.social · 21/05/2025

2. "bm" and "mk" from Grundler, Rabosky & Zapata (2022, 1 citation!). These two software packages are BLAZING FAST methods that identify shifts in rates in BM and Mk models on a tree. They're super easy to use. github.com/blueraleigh/bm github.com/blueraleigh/mk academic.oup.com/sysbio/artic...

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Josef Uyeda @pseudacris.bsky.social · 21/05/2025

1. Phylogenetic factor analysis (Tolkoff et al. 2018, 39 citations; Hassler et al. 2022, 19 citations). I feel like this does way better what many people want when they do a phylo PCA. Takes discrete + cont data. besjournals.onlinelibrary.wiley.com/doi/full/10.... academic.oup.com/sysbio/artic...

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Josef Uyeda @pseudacris.bsky.social · 28/04/2025

Japanese Jack-in-the-pulpit (Arisaema sikokianum) looking into the morning sun from my shade garden.

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Josef Uyeda @pseudacris.bsky.social · 24/04/2025

They were like "why can't these sperm swim and why are there so few of them?" and turns out it's cause they basically drop them off right on top of the ovary. I hate it.

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Josef Uyeda @pseudacris.bsky.social · 11/04/2025

Shown here. Almost all analyses best supported hypothesis is dire wolf equally related to jackals/awd/wolves (Col 1). Some analyses show equivocal support for dire wolf closer related to awd/wolves than jackals (col 2). Almost no support for dire wolves closer to jackals than wolves (3rd column).

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Josef Uyeda @pseudacris.bsky.social · 10/04/2025

RE: Dire wolves. Several articles, including the science article quoting the lead author of the study, reference a finding that dire wolves are more closely related to African Jackals than Grey wolves. Yet the paper has this figure, which doesn't support that claim at all. What am I missing?

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Josef Uyeda @pseudacris.bsky.social · 08/04/2025

Loving the CRISPR sequel to Face/off. Yes I have amazing photoshop skills thank you.

parody face-off movie poster with "dire wolf" and grey wolf in place of travolta/cage

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Josef Uyeda @pseudacris.bsky.social · 03/04/2025

Deadline tomorrow, April 4th at 5:00pm! Apply & share!

Evolutionary quantitative genetics workshop 2025 flyer. Lists instructors and application deadline, and more info, all of which is available at https://eqgw.github.io

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Josef Uyeda @pseudacris.bsky.social · 02/04/2025

I don't think I understand your point, the right side of the graph shows an effect across the board for women from projecting the line from the left. But really, the effect immediately before and after 0 is the cleanest test, as other confounders can come in over time. Obviously age explains trend.

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Josef Uyeda @pseudacris.bsky.social · 30/03/2025

One week left for applications! (just a simple questionnaire).

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Josef Uyeda @pseudacris.bsky.social · 11/02/2025

Yo, all I was talking about. Central limit theorem breaks down binaries.

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Josef Uyeda @pseudacris.bsky.social · 11/02/2025

I asked ChatGPT to rewrite @waynemaddison.bsky.social and Whitton's abstract as described here. Honestly it's pretty 🔥🔥🔥

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Josef Uyeda @pseudacris.bsky.social · 21/01/2025

Sure, here's some anisogamy in an animal but it's in the opposite direction. So 3). He's wrong regardless.

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Josef Uyeda @pseudacris.bsky.social · 05/12/2024

The dominance of dicots in being carnivorous argues against this claim (monocot carnivores' leaves are boring af).

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Josef Uyeda @pseudacris.bsky.social · 08/01/2024

New paper lead by Diego Porto & Sergei Tarasov w/István Mikó & myself introducing a new R package, ontophylo, for reconstructing the evolutionary dynamics of phenomes! Especially cool viz tools for anatomically dependent characters on phylogenies. besjournals.onlinelibrary.wiley.com/doi/10.1111/...

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Josef Uyeda @pseudacris.bsky.social · 22/11/2023

One of my Australian tuberous sundews, Drosera indumenta. Haven’t had the greatest luck with this group but this one looks nice this year.

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