6/ I learned many tricks from this book. e.g., csvtk read it for free for the second version buff.ly/3RKEWiL

(1/5) Our hackathon on Python/R interoperability for single cell and spatial data was a blast! 👏👏👏 to all the attendees and VIB Bioconductor! Some highlights of everyone’s amazing work:

veloVI enhances RNA velocity analysis with uncertainty quantification and extensibility by deep generative modeling of gene-specific transcriptional dynamics. Adam Gayoso Philipp Weiler Fabian Theis Yosef Lab OA paper: nature.com/articles/s4159…

Mo Lotfollahi Good, short study, as always it is astonishingly hard to beat simple (often linear) models… My argument would be that we need tougher problems (and better benchmarks). At least cross tissue cell type prediction is: biorxiv.org/content/10.110…

📢Introducing GenePT, our new #gene + #singlecell #foundationmodel built from #ChatGPT. It's simple yet surprisingly effective! 1. we use text summary + #ChatGPT to generate embedding for each gene 2. cell embedding = avg of gene vectors weighted by expression GenePT can

Looking for a full beta release later this month (with a couple more functions and vignettes), but scRepertoire v2 is up and running. Check it out at: borch.dev/uploads/screpe…

Excited and relieved to share with you our microglia-sufficient brain organoid work just online nature nature.com/articles/s4158… IPSC-derived microglia reprogram them metabolically! And make them mature faster!

scRepertoire v2 beta is out and stable, Rccp integration from means its 30x faster. Please check it out, kick the tires, find the edge cases: GitHub: github.com/ncborcherding/… website: borch.dev/uploads/screpe…

Apple lost $1 billion in 1997. Steve Jobs returned to the company and spoke to developers at WWDC. When an audience member insulted him, he responded: “One of the hardest things when you’re trying to effect change is that people like this gentleman are right.”

Very glad that our review on "Single-cell Immune Repertoire Analysis" is now out Nature Methods ! There was a lot to cover and very happy with the team effort! Sergio EI . PhD MeganSoonSF Nick Borcherding Tuong Lab Child Health Research Centre UQ News UQ Medicine ! nature.com/articles/s4159…

Discover the profound insights of deep, single-cell TCR and BCR sequencing in the latest publication by Nick Borcherding. Our technology offers insights into adaptive immune receptors, allowing discovery and interrogation of immune diversity. 🗞️ eu1.hubs.ly/H08SZGQ0

We are thrilled to present Nature Methods’ first immunology-themed focus issue! nature.com/nmeth/volumes/… Cover artwork from Bozhi Tian The University of Chicago.

In our May Editorial we discuss how recent methods development in immunology has revolutionized investigations of immune related mechanisms and highlight some recent papers published in Nature Methods. nature.com/articles/s4159…

A Review by @kelvintuong, Sergio EI . PhD, MeganSoonSF and Nick Borcherding delves into the different computational methods for single-cell T cell and B cell antigen receptor-sequencing data analyses. nature.com/articles/s4159…

A big shout-out to our resident editor-immunologist, Madhura Mukhopadhyay, for curating this wonderful Focus on methods for immunology! We hope you enjoy reading our May issue! nature.com/nmeth/volumes/…

Pleasantly surprised to see github.com/zktuong/dandel… being used in the wild 😂 glad i’m not the only one in the world using it haha

Wisdom

We have a PhD position opening for Australian domestic students interested to work at the intersection of immunology, data science, and paediatrics! Check out the full description here! linkedin.com/posts/ian-fraz… Di Yu 余迪