Jan De Laet
@jandelaet.bsky.social
📤 39
📥 68
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Biologist, ICT professional, amateur runner and
#tenorhorn
player. www.anagallis.be
No such thing as a free lunch: a note on what 'natural' means in the Phylogenetic Minimum Description Length optimality criterion and how PMDL relocates substantive assumptions into the chosen description language
onlinelibrary.wiley.com/doi/full/10....
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Description languages as modelling decisions: A comment on Wheeler and Varón (2025)
Wheeler and Varón (2025) proposed phylogenetic minimum description length (PMDL) as a phylogenetic optimality criterion grounded in algorithmic (Kolmogorov) complexity. PMDL applies the minimum descr...
https://onlinelibrary.wiley.com/doi/full/10.1111/cla.70037
5 days ago
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Jan De Laet
A. Murat Eren (Meren)
7 days ago
How every layer of science's "self-correcting machinery" failed when Iva Veseli and I simply wanted to reproduce the findings of a high-profile study on gut microbiome and autism:
merenlab.org/2026/04/15/u...
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Unfalsifiable by Design: A Year of Trying and Failing to Reproduce a Human Microbiome and Autism Study
The myth of open data, reproducibility, responsibility, and accountability in science, and your role in it
https://merenlab.org/2026/04/15/unfalsifiable-by-design/
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Jan De Laet
Mati Armella
19 days ago
🧵 (2/3) To resolve the history of these large-sized
#mammals
, we integrate a dependency-coded matrix of 54 discrete characters and 42 morphogeometric and 5 continuous characters, across a sample of 37 taxa. ✅ 5 major lineages recovered ✅ Character weight ranking ✅ Ancestral reconstructions
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reposted by
Jan De Laet
Mati Armella
19 days ago
🧵 (1/3) What makes South American Ungulates so unique?🦏🍃
#FossilFriday
Check out our new comprehensive combined-evidence
#phylogeny
of
#Toxodontidae
!!!
#Paleontology
#Evolution
#Fossils
#Argentina
#CONICET
doi.org/10.1111/cla....
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Jan De Laet
Richard Sever
12 months ago
AI perpetuates knowledge artefacts. Mind you, a look at PubMed will tell you that humans are pretty good at perpetuating these too..
theconversation.com/a-weird-phra...
ht
@cyrilpedia.bsky.social
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A weird phrase is plaguing scientific papers – and we traced it back to a glitch in AI training data
Once errors creep into the AI knowledge base, they can be very hard to get out.
https://theconversation.com/a-weird-phrase-is-plaguing-scientific-papers-and-we-traced-it-back-to-a-glitch-in-ai-training-data-254463
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A new morphological phylogeny of Malacostraca comparing the application of character dependencies and implied weighting - Grams - Cladistics - Wiley Online Library
onlinelibrary.wiley.com/doi/10.1111/...
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A new morphological phylogeny of Malacostraca comparing the application of character dependencies and implied weighting
Using a new character matrix composed of revised matrices of previous analyses and new morphological findings, the phylogeny of Malacostraca (Pancrustacea) is analysed anew with 207 characters for 35...
https://onlinelibrary.wiley.com/doi/10.1111/cla.12611
about 1 year ago
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In
onlinelibrary.wiley.com/doi/full/10....
Pol & Ezcurra present a fully scripted (TNT & R, incl. publication-ready graphics)
#parsimony
based workflow for estimating rates. It deals with ambiguous optimizations and multiple MPTs and can use different calibration approaches. Nice work!
#phylogeny
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Cladistic estimates of evolutionary rates focused on palaeontological datasets using TNT
We describe a protocol for estimating evolutionary rates from phylogenetic trees based on parsimony character optimization. The rate estimation is conducted through a TNT script and the results are a...
https://onlinelibrary.wiley.com/doi/full/10.1111/cla.12608
about 1 year ago
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If you see this quote with flowers from your gallery. We can all use some beauty right now (Quercus robur L., pedunculate oak, in Belgium;
www.plantsystematics.org/imgs/jdelaet...
)
add a skeleton here at some point
about 1 year ago
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Wheeler (
onlinelibrary.wiley.com/doi/10.1111/...
) recently proposed to deal with inapplicable characters in
#morphology
and
#phylogeny
by concatenating morphological characters into morphological sequences that are, in a next step, to be analyzed using
#phylogenetic
tree alignment algorithms.
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Much ado about nothing: inapplicable data as insertion–deletion events
The treatment of inapplicable characters has proved especially vexing to systematists. Investigators have wrestled with alternative coding scenarios to capture both the presence and absence of a feat....
https://onlinelibrary.wiley.com/doi/10.1111/cla.12553
about 1 year ago
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reposted by
Jan De Laet
Jorge R Flores
over 1 year ago
Our new paper on the
#phylogeny
of Osmundales is out. We reviewed the phylogeny of the group by taking into account character dependence and found that most of the recognised groups are hardly when dependencies are ignored. Check it out
#ferns
#fossilfriday
onlinelibrary.wiley.com/doi/abs/10.1...
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