Gregor Gorjanc

This is truly gold.

@yanwong.bsky.social @anaignatieva.bsky.social @epigenci.bsky.social

Two post-doc post in ARG space and loads of internal and external collaboration

Postdoctoral Research Associate in quantitative genomics
elxw.fa.em3.oraclecloud.com/hcmUI/Candid...

Postdoctoral Research Associate in quantitative genetics and breeding
elxw.fa.em3.oraclecloud.com/hcmUI/Candid...

Bay Area Popgen. FREE awesome popgen conference. Registration and application for talks now live on our website!

codex w/ mutli-agents really really shines. watching it spawn several agents to take care of separate coding tasks is mind blowing.

Gave Codex an old R simulation I had lying around and it very adeptly turned it into an interactive web app with tunable parameters and visualizations.

sashagusev.github.io/Stabilizing-...

flamingtempura.github.io/bibtex-tidy/...

So lovely

"Monogenic no more: are all epilepsies polygenic?"
by Remi Stevelink & colleagues

FREE till April 1st at
authors.elsevier.com/a/1mbEocQbJI...

Link to the updated version:
www.biorxiv.org/content/10.1...

Our group (PI Jonathan Terhorst) is looking for a talented postdoc in computational biology, statistics, population genetics to work on quantitative genetics and ARG, as part of a larger collaboration with groups in Oxford and Edinburgh. Details to follow.
(4/4)

Comparison to BOLT-LMM clearly shows the advantage of this new class of ARG-based algorithms over more traditional ones. The backbone (implicit genotype access by matmul) is the same, but ARG offers a huge improvement.
(3/n)

The work is based on fast matrix access via ARG. Zhu et al. (2025) offers a similar but different algorithm in arg-needle-lib package. We found that tskit's exact algorithm is not only more accurate, but also much faster (~20-200x) than their Monte-Carlo algo.
(2/n)
pubmed.ncbi.nlm.nih.gov/41380687/

Our recent work
"Genetic prediction with ARG-powered linear algebra"
was recently accepted to Genetics and we also have a postdoc job opening related to the paper, supported by a private philanthropy for 3 years.

The main additions are timing benchmarks to arg-needle-lib and BOLT-LMM.

1/n

Another Claude project: a static site that pulls in GWAS SNP data from ensemble, multiple public biobanks, open targets, gtex, eqtl catalog, and OMIM.

sashagusev.github.io/gwas_lookup/

Excited for this. Teaching popgen is one of my favourite parts of my job and I've wondered about doing an online version of the class for sometime. Teaming up with @jrossibarra.bsky.social to do this is wonderful.

Uuu, can you say more? Thanks;)

GitHub - eddelbuettel/chronometre-r Contribute to eddelbuettel/chronometre-r development by creating an account on GitHub.

Following an Rcpp question 'how do I share an object / external pointer' between #Rstats and #Python, I cooked up a simple 'stopwatch' example in two repos with two packages:

github.com/eddelbuettel...
github.com/eddelbuettel...

The Python side is on PyPi, shall I send the R side to CRAN?

Did anyone try telling an AI agent to format your ms according to the journal requirements?

Agree that codex is good. Don’t have experience with CC

A very lazy Q: Is Levy process considered commonly in phylo comparative methods?
www.biorxiv.org/content/10.6...

If anyone regrets not being able to attend my recent regression modeling course you can still access the slides, exercises, and recordings with a late donation. For donation instructions see betanalpha.github.io/courses/.

#mathshy #statistics

As a (to me very enjoyable) part of this paper, we worked out what mutation-selection balance looks like in finite populations with varying degrees of inbreeding.

Preprint by Gravel et al addressing an interesting question. Given carriers of a mutation and a population-scale pedigree, can we identify the most recent common ancestor of all carriers?

"20 carriers usually provide enough information to reliably identify a common ancestor 15 generations ago"

Good points!!!

I guess the challenge is in knowing how much was it used and what for - editing and compactness or straight write-me-an-introduction.

Nigel Farage's Russian Influence Advent Calendar Byline Times has compiled a festive offering of the prize moments when the Reform leader has gifted the political agenda to Vladimir Putin and Russia

A whole Advent Calendar of Nigel Farage repeating Vladimir Putin's talking points. Brilliant. bylinetimes.com/2025/12/10/n...

I reckon that one challenge is that at the time of donation we will never know all undesirable mutations:( Perhaps the doses should be tested for known undesirable mutations before use.

As to too many doses per donor, if there are more donors the numbers per donor can be decreased.

An interesting rabbit hole that I have yet dug into is that population structure alone cannot drive genetic variance inflation in the estimates. We did a spatial simulation exhibiting a very strong isolation-by-distance pattern. The estimated variance components are consistent.

Very very happy that this work is out. Led by the brilliant @epigenci.bsky.social and other fab collaborators! I have been thinking about this for years, but couldn’t do it without the team;) Enjoy the reading!