Will Freyman @[email protected]

Check out this website ibd.la that summarizes the phenotypic and genetic characteristics of around 300+ genetic clusters identified in the UCLA biobank. @ChristaCaggiano gave an interesting talk on this fascinating work #ASHG22 #DRIFT22

Relatedness inference with low-coverage ancient DNA data is still a hard problem. Today, we posted a preprint presenting a new method called KIN that identifies close relatives up to 3rd-degree while differentiating parent-child from siblings: biorxiv.org/content/10.110… (1/3)

1/8 25 years ago, today (Oct 24, 1997), 'Gattaca' was released. Me & @DocEdge85 chose to commemorate the event w/ a technical perspective recently published in GENETICS @GeneticsGSA Here I'll just post several items related to the broader project. academic.oup.com/genetics/advan…

New version of SHAPEIT is released (v5). It phases rare variants in the UK Biobank whole-genome and whole-exome sequencing data with great accuracy. Thanks to all co-authors @Rbn_Hfmstr @Diogo_M_Ribeiro @simrubk @ODelaneau ! @DelaneauGroup @dbc_unil biorxiv.org/content/10.110…

Improving polygenic risk prediction in admixed populations by explicitly modeling ancestral-specific effects via GAUDI biorxiv.org/content/10.110…

Summary of the #Bayesian #phylogenetic framework and conceptualization of a variety of methods to improve posterior approximations via Markov chain Monte Carlo sampling. #inference [Review co-authored by EVBC members @suchard_group @LemeyLab] doi.org/10.1098/rstb.2…

The race/genetics discordance is like nails on the blackboard for me. A reminder - race/ethnicity is selected from societal pre-defined boxes, 1 dimension, ~30 choices. Genetics is measuring someone's DNA over ~300,000 (ish) dimensions of their DNA. They are *not* the same.

MAST: Phylogenetic Inference with Mixtures Across Sites and Trees dlvr.it/SZlMhY

Fast computation of principal components of genomic similarity matrices biorxiv.org/cgi/content/sh… #bioRxiv

I really love this paper by @nhcooper123 et al. Small amounts of measurement error can lead to 100% rejection of the simpler (correct) model. onlinelibrary.wiley.com/doi/10.1111/bi…

New preprint! We demonstrate that PGS accuracy varies continuously cross individuals within and across genetic ancestry clusters and highlight that PGS should be interpreted through the lens of continuous genetic ancestries. 🧵 biorxiv.org/content/10.110…

The virtual symposium "Using Ancestral Recombination Graphs (ARGs) to Infer Evolutionary Processes" will take place on Friday September 30. You can find the program here: virtual.oxfordabstracts.com/#/event/3132/p…"

Now published in Methods in Ecology and Evolution! besjournals.onlinelibrary.wiley.com/doi/10.1111/20…

Deciphering the genetic structure of the Quebec founder population using genealogies biorxiv.org/content/10.110…

Excited to share a revision of the preprint “Nested Rhat: Assessing the convergence of Markov chain Monte Carlo when running many short chains”, with Matt Hoffman, Pavel Sountsov, Lionel Riou-Durand, @avehtari, and Andrew Gelman. arxiv.org/abs/2110.13017

Demographic History Inference and the Polyploid Continuum biorxiv.org/cgi/content/sh… #bioRxiv

This population doesn't exist: learning the distribution of evolutionary histories with generative adversarial networks biorxiv.org/cgi/content/sh… #biorxiv_evobio

We are officially announcing the Fall 2022 Bay Area Population Genomics (BAPG) conference to be held at UC Berkeley on October 15! Check out our website: sites.google.com/berkeley.edu/b… where you'll find logistics info + link to registration. Contact me or @YunDeng5 with any questions.

#PLOSCompBio: Recombination-aware phylogeographic inference using the structured coalescent with ancestral re ... dx.plos.org/10.1371/journa…