We are pleased to announce that Heather Turner @heathrturnr.fosstodon.org.ap.brid.gy has joined the R Core Team. She has been an active contributor notably via the R Dev Days, and has greatly improved cooperation between R Core and the R community in more ways #RStats.
agree!
Wow! What a tool: half million downloads from Bioconda - Congrats @robp.bsky.social and Combine-Lab! 👏 Happy to see SSHash plugged here.
I've been wanting to do a big refactor and build system update for salmon for a looong time. I finally got around to it, and updated the backend index to use the newest SSHash while I was at it : github.com/COMBINE-lab/... (also with native ARM support & on bioconda!)
Also linking to the previous thread by our co-author Sarah Zweifel @sarahbrotman.bsky.social on 'AdipoExpress', one of the meta-analysis eQTL studies compared here.
bsky.app/profile/sara...
🧬 New from @leandrosboukas.bsky.social & co
📄Identification of de novo variants from parent-proband duos via long-read sequencing
🖥️ github.com/sbergercnmc/...
Very happy to share our work with Seth Berger and UCI-GREGoR at @ajhgnews.bsky.social .
We developed and extensively evaluated a method - duoNovo - that uses long-read sequencing to detect de novo variants using *only one* biological parent. (1/n)
R package: github.com/sbergercnmc/...
🧬 New Review from Cromer et al!
📄 Incorporating polygenic risk scores and social determinants of health across populations: Considerations and best practices in research
#PRS #SDoH
Are you interested in understanding how social and structural determinants of health influence estimates of genetic risk? Looking for figures for teaching these concepts?
Check out our work on considerations for modeling them together, led by Sara Cromer and Dave Conti with @prsmethods.bsky.social
📣New from Li & Morrison!
📄Mind the gap: Characterizing bias due to population mismatch in two-sample Mendelian randomization
Also this thread on pQTL / eQTL comparisons:
bsky.app/profile/tuul...
Thinking about where we are on the power curve is key. Noting also this thread from @ee-reh-neh.bsky.social:
bsky.app/profile/ee-r...
Here is the thread describing the preprint:
bsky.app/profile/mike...
Great to see this work out, led by Jon Rosen and co-supervised Karen Mohlke @klmohlke.bsky.social!
Connecting to some recent threads here:
🧬 New today!
📄 Higher eQTL power reveals signals that boost GWAS colocalization
🧑🤝🧑 @mikelove.bsky.social @klmohlke.bsky.social & colleagues
We are covering 40 people's travel, lodging, and registration for posit::conf() this fall! If you are from a group that is underrepresented in data science or open source, please consider applying for the Opportunity Scholarship—we'd love to have you join.
posit.co/blog/apply-t...
David Botstein, a titan within the scientific community, died last week. GSA mourns his passing and celebrates his legacy.
Read more about his significance to our community in this thread ⬇️🧵
My preprint on keju, a statistical tool for Massively Parallel Reporter Assay (MPRA) data, is out! keju improves sensitivity, calibration, and reliability over previous methods by closely modeling important uncertainty sources in MPRAs. Check it out: www.biorxiv.org/content/10.6... (1/n)
A key insight into current comparisons of genetic regulation of molecular traits:
Finally, today's offering! www.biorxiv.org/content/10.6...
This began life as a very different project which failed because we couldn't agree on defining eqtl sharing across cohorts. So two young members of the lab dug deeply into this - first @ijbeasley.bsky.social, then @patrickgibbs.bsky.social
Happy to share new manuscript I completed with @ee-reh-neh.bsky.social & @davisjmcc.bsky.social back in Melbourne. The work originally conceived by @ijbeasley.bsky.social focuses on how we can reconcile and meta-analyse eQTL studies across studies cohorts and ancestries. doi.org/10.64898/202...
The first fully Rust version of piscem! scRNA, scATAC, and bulk-RNA -> RAD files, accurately, in low memory, and FAST. And all in Rust :) anaconda.org/channels/bio...
Just found reviewer from @simonpcouch.com: Human-scale LLM code review, as if a member of the tidyverse team were there with you to workshop your code for reproducibility, readability, and resilience. Note it's still very experimental. #Rstats github.com/simonpcouch/...
Given the recent spicy #rstats threads, an important reminder:
There's no single right way to code
If it works for you, that's all that matters really
Be good to your fellow coders
exactly. they aren't the enemy. it's the person still using the wrong editor
Apply to be an Opportunity Scholar at posit::conf(2026) in Houston!
We’re offering 40 full-support scholarships for underrepresented groups in data science. Includes: 🎟️ Conference+Workshop pass 🏨 Hotel stay ✈️ Travel reimbursement
Apply by March 13: posit.co/blog/apply-t...
#positconf2026 #rstats
As I'm updating my NIH Biosketch for the N-th time this year, I made a Jekyll theme for students to familiarize themselves with this CV structure while building their online presence.
Demo: jefworks.github.io/online-biosk...
Fork to modify: github.com/JEFworks/onl...
#JustAcademicThings
We recently updated our paper demonstrating evidence of off-target probe binding affecting the 10x Genomics Xenium spatial transcriptomics platform with key clarifications, new quantifications, and approaches for evaluating custom gene panels: biorxiv.org/content/10.1...
🧵👇1/n
This is so fun :). Now you can build the sshash-rs index from within python as well (and even from a list of Python strings! Like always, it's required that there are no duplicate k-mers; the input must be an SPSS). Query individual k-mers, get their hit info, even create a streaming query engine!
If you are teaching any kind of statistics, probability or modeling classes, you'll love this website. Contains dozens of interactive simulations of random processes, with sliders, different visualizat options, and full numeric log ouput: www.randomservices.org/random/apps/...
