No. 004 - The Hallway Track The Hallway Track No. 004 - How AI is affecting the practice of science

Claude Opus 4.6 reimplemented gotree, a 16,000-line bioinformatics toolkit, from its specification alone. No source code. New benchmark from Epoch AI and METR. The catch: it works because gotree has a checkable spec. Most scientific software does not.

hallway.aris.pub/no/004/

No. 003 - The Hallway Track How AI is affecting the practice of science.

Scientists planted a fake disease in obviously bogus preprints. Within weeks, ChatGPT and Gemini were advising patients to see a doctor for it. A peer-reviewed journal cited the paper before retracting.

This and 7 other links on AI + research practice: hallway.aris.pub/no/003/

No. 003 - The Hallway Track The Hallway Track No. 003 - How AI is affecting the practice of science

Scientists invented a fake eye disease and planted it in bogus preprints. Within weeks, ChatGPT and Gemini were advising patients to see an ophthalmologist for it. A peer-reviewed journal cited the paper before retracting.

Seven more links on AI + research practice: hallway.aris.pub/no/003/

No. 002 - The Hallway Track The Hallway Track No. 002 - How AI is affecting the practice of science

Over 110,000 scholarly papers published in 2025 contain AI-hallucinated references. In CS, 2.6% of papers at major conferences had fabricated citations, up from 0.3% the year before.

This and six other links on AI + research practice: hallway.aris.pub/no/002/

No. 001 - The Hallway Track The Hallway Track No. 001 - How AI is affecting the practice of science

arXiv is becoming an independent nonprofit after 35 years at Cornell. The CEO hire will tell us so much about where scientific publishing is heading in the age of AI.

This and seven other things worth reading on AI and research practice: hallway.aris.pub/no/001/

Diagram with two panels. Left panel labeled "As structures" shows nested ellipses: DynHyp (outermost) contains DynHyp_focal, which contains DynGraph, which contains DynHyp_flat (dashed). DynHyp_NFS sits separately inside DynHyp. Right panel labeled "As trajectories" shows a single ellipse: DynGraph = DynHyp. The structural hierarchy on the left collapses to equivalence on the right.

New paper: "The Cost of Representing Higher-Order Dynamics on Graphs"

Can graphs represent group interactions? Yes, but graphs pay a parsimony cost when compared to using hypergraphs.

Addresses recent work by Peixoto et al., Moutuou, and Lacasa.

scroll.press/2026/graph-hypergraph-dynamics-cost

That's awesome! I wish more professors did that :)

Same paper, same math, same results as the 2020 original in J. Complex Networks. Just not a PDF anymore. Built with AI (widget code), published on Scroll Press (free, open source preprint archive for web-native papers). If you have a paper with figures that should move, DM me!

What if your paper's figures were interactive? I rebuilt one of my papers as a web page. Drag a slider: control the threshold for graph reconstruction. Click a button: run link prediction. Check it out: scroll.press/2026/glee

arXiv isn't valuable because of its codebase, but for thirty years of papers, citations, and trust that researchers deposited into it.

You can have AI generate code - you can't AI-generate trust.

Wrote something about what software is worth when building it is near free.

aris.pub/blog/softwar...

ashwinsundar.com/posts/legibi...

Ten years ago I started my batch at the Recurse Center. I never wrote my return statement, so a decade later I had my robot interview me instead.

aris.pub/blog/one-thousand-and-ten-years-of-the-recurse-center/