Weekly Recap (Oct 31, 2025)
AI in science, Quarto, biodiversity, changed grant titles, new papers & preprints, Nextflow plugin registry, Via Scientific, R updates from R Data Scientist, rOpenSci, Posit, R Weekly, and R Works ...
Traitors null hypothesis
The rest of the UK and I have been watching the Celebrity Traitors over...
Understanding prcomp() center and scale Arguments for Single-Cell RNA-seq PCA
During my work with single-cell RNA-seq data, I’ve often encountered confusion about PCA and specifically when to use the center and scale arguments in R’s prcomp()<...
Weekly recap (Oct 24, 2025)
Polyglot data science pipeline (R+Python+Julia) with rixpress, EuroBioC2025/BCN, Python packaging for R devs, Python in 2025, R/Pharma, DARPA, ASHG, the R Data Scientist, Quarto, universities and AI...
ASHG Posters: The Agony and The Ecstasy
ASHG is a huge meeting, probably the second largest I've ever attended after ASCO. ASBMB is similar in size perhaps, though I think a hair smaller and definitely a bigger than ESHG. And certainly mu...
PacBio: $300 Genome Via Chemistry Update
ASHG is here in Boston, just down the street from Ginkgo's HQ. I'm in a new role in Ginkgo Automation, trying to convince the NGS world that our automation platform is the bee's knees. So excellent ...
RNA velocity in situ infers gene expression dynamics using spatial transcriptomics data
Introduction...
Ship of ThesION
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15th Anniversary
It has been 15 years since I started this blog! As typical with many of my anniversary posts, I reflect on things that I have started to do and/or have learned since the last time I wrote an annive...
Our journey through low-complexity regions
Those who inspect SVs often have probably noticed many SVs fall in low-complexity regions (LCRs) or tandem repeats and they are challenging to call. How many and how challenging? I could not find a...