Little blog post, preprint included, re: spatial/image Bioc hackathon on a little Venetian island — Thank you @wkhuber.bsky.social and especially @davi1893.bsky.social (and Elena!) for organizing and securing this 🤩 location 🤩 — Let’s do it again!

Registration is now open! See: csama2026.bioconductor.eu/registration...

This year's CSAMA Biological Data Science Summer School in Brixen takes place 24-29 May 2026. Topics: single-cell and spatial omics, statistics, multi-omics, ML/AI, all very hands-on using R / Bioconductor! More info: csama2026.bioconductor.eu Registration: 1 Feb 2026! @bioconductor.bsky.social

EuroBioC2025 is in full swing here in Barcelona! Day 1 was full of great talks, conversations, and that amazing Bioconductor community energy. Excited for what’s ahead today and tomorrow! #EuroBioC2025 #Bioconductor #OpenScience #Community

📣 Late-breaking poster call for #EuroBioC2025 is now open! Submit by July 11 to present your work in Barcelona this September. 🔗 forms.gle/ewTGdKzB2xyE... 📅 Notifications by July 15 #Bioconductor #Bioinformatics

🤔Could quality control create more harm than good? We explore this question in the context of #SRT. SpotSweeper is developed to combat implicit selection bias. Led by fellow rising star @mictott.bsky.social and collab with amazing mentor @stephaniehicks.bsky.social 👉: bsky.app/profile/mict...

Everyone involved in trying to pass off that ChatGPT-extruded disinformation manifesto as a scientific report should be, at the very least, barred from public office for life. The MAHA report is dangerous criminal misconduct and an offence to the process of science.

The war on science in the US is already having an effect on private sector research like AlphaFold. Bears repeating but the private sector builds on top of things created by academic research for the public good. This hurts everyone.

THREAD 🧵 Internal State Department records show that months of warnings have become a reality: The Trump administration’s sudden withdrawal of foreign humanitarian aid has brought about death, violence and unrest. 1/

22 years ago I pivoted from working on antibiotic resistance to pandemic viruses. Since then, I've argued that if we care about saving US lives in expectation, advance capacity for producing bird flu vaccine offers by far the greatest expected return on investment. ... We were so goddamn close.

This is terrible news, HMMER & Infernal are at the heart of DBs like Pfam, Rfam & Dfam. And vital pipelines such as AlphaFold.

I appreciate the offers from other scientists to help Harvard (students, labs, etc) through this attack, but what would be most helpful is for you to use your position to contact your elected representatives and make it clear this fight isn't just Harvard, it will affect you, and their districts too

NIH funding supporting the HMMER and Infernal software projects has been terminated. NIH states that our work, as well as all other federally funded research at Harvard, is of no benefit to the US.

Heads-up that Genome Biology is starting a new benchmark collection ("Benchmarks v2.0"): www.biomedcentral.com/collections/...

Fascinating talk by @andganna.bsky.social at #ds4hb A lot of food for thought on efficient data collection and fairness in AI for health!

Science is under threat in the US. @elife.bsky.social have commissioned a series of articles discussing the implications and what we can do. The first three articles are now live. More to follow: elifesciences.org/articles/106... elifesciences.org/articles/106... elifesciences.org/articles/106...

Would you like to spend a #postdoctoral fellowship in the beautiful Italian Alps doing great science? Apply for a MSCA Postdoctoral fellowship with us on #stats #biostats #genomics #epidemiology Many infos here 👇 🧵 #StatsSky #rstats #popgen #nephsky 1/n

📣📣Are you looking for a postdoc? 📣📣 Does a EU or Horizon Europe assoc country (eg UK, S Korea) seem like a good destination? These fellowships a great funding option for anyone in the 🌎 👀 Check them out - next call opens 8 May 🧪 👨‍🔬👩‍🔬 marie-sklodowska-curie-actions.ec.europa.eu/actions/post...

Abstract submissions are now open for the European Bioconductor Conference (EuroBioC2025), 17-19 September 2025 in Barcelona. This event will bring together the Bioconductor community in Europe to advance bioinformatics, data science, and open-source software. eurobioc2025.bioconductor.org

🎨 Reminder that EuroBioC2025 Sticker Contest is still open! Deadline Mar 10. Don't miss out on the chance to have your design featured at the conference and win free registration ✨ Submit buff.ly/42JiCLN Abstracts are open for submission too! #EuroBioC2025 #RStats #Bioinformatics #StickerContest

"Your AI can’t see gorillas!" A few years ago we found that students are more likely to see the gorilla in their data if they are not also asked to test a specific hypothesis. In his blog Chiraag Gohel now shows that Chat-GPT can’t help you to find it either. chiraaggohel.com/posts/llms-e...

In two weeks (10th March) John Burn-Murdoch will be holding a Conversation at the San Giobbe campus, Room 6A (2pm). Everyone is very welcome to join (and thanks @crisvarin.bsky.social for making this happen)!

New #rstats pkg gander is now on CRAN! gander is a coding assistant that knows how describe the objects in your global R environment. So, when you're working with data, LLMs will know the names, types, and distributions of data columns, resulting in much more effective completions.

📣 EuroBioC2025: Abstract Submissions Open! Join us in Barcelona, Spain 🇪🇸, Sep 17-19, 2025, for the European Bioconductor Conference! Submit your abstract for a short talk, workshop, or poster by Apr 24. ➡️ Submit https://buff.ly/3EN9w6P #EuroBioC2025 #Bioinformatics #RStats #DataScience

The sgdGMF #rstats package is now officially on CRAN: cran.r-project.org/package=sgdGMF Please give it a try and let us know if you have any feedback!

🎨 EuroBioC2025 Sticker Contest! Unleash your creativity for the European Bioconductor Conference in Barcelona! The winning sticker will be featured on our website and handed out at the event. 🗓 Deadline: Mar 10, 2025 🏆 Prize: Free reg to EuroBioC2025 for winning design! Abstract call coming soon!

Trump & Musk are making massive cuts to the National Institutes of Health. I know there is a lot going on right now, but this is one of worst things they have done so far, will affect cancer research and trials, the search for cures, innovation and competitiveness, our universities. Your lives.

Modern-Day Oracles or Bullshit Machines? Jevin West (@jevinwest.bsky.social) and I have spent the last eight months developing the course on large language models (LLMs) that we think every college freshman needs to take. thebullshitmachines.com

8. It is difficult to overstate what a catastrophe this will be for the US research and education systems, particular in biomedical fields. It is deliberate and wanton devastation entirely out of scale with any concern about DEI activities on campuses. The goal is destroy US universities.

1. Today the NIH director issued a new directive slashing overhead rates to 15%. I want to provide some context on what that means and why it matters. grants.nih.gov/grants/guide...

Shoutout to all of the exceptional Black scientists who have contributed to and are currently contributing to virology research! Your work is vitally important to understanding basic virology controlling viral diseases worldwide! #BlackHistoryMonth

A statement from the BMA Board Members to the BMA Community and Beyond. Additional alt text to follow due to the character limit.

Registrations are now open! Follow the link at csama2025.bioconductor.eu/registration...

It's all gone. They've taken down all the CDC datasets from data.cdc.gov Data that's critical for public health & research. Data paid for by citizens. That the government now censors. "Do not fear those who tell the truth. Fear those who try to hide it. They are willing to sacrifice other things."

Do you want to learn more about the statistical analysis of proteomics, metabolomics, single-cell and spatial transcriptomics? Do you want to up your game with R and Bioconductor? All of this while enjoying summer in the beautiful Italian Alps? Join us for the 21st edition of CSAMA July 6-11!

🧬 🖥️ Need help for investigating tissue complexity from #spatial #transcriptomics data? Try out our #spacedeconv R package! 💻 Code: github.com/omnideconv/s... 📝 Preprint: www.researchsquare.com/article/rs-5...

This is long overdue, but over the winter break we were finally able to write up our sgdGMF paper: arxiv.org/abs/2412.20509 We present a stochastic gradient descent method that allows to efficiently and very quickly estimate latent factors for, e.g., dimensionality reduction of single-cell data

This is insane, and honestly quite worrying... even (or especially?) when looking at it from this side of the ocean.

❗Still one week to apply for our postdoc position in bionformatics & biostatistics @ Eurac Biomedicine in the beautiful Dolomites - hurry up! #stats 👇

A little piece that's been in the works with former MSc, now PhD student, Jiayi Wang & @markrobinsonca.bsky.social in the multi-sample/-condition/-subpopulation theme: ...

The UX of LEGO Interface Panels interactionmagic.com/UX-LEGO-Inte...

Maintain a public archive of your old tweets that's independent of X, as a self-hosted static webpage. An R/Quarto script that reads your tweet archive (downloaded from X) & creates an HTML page. Example (w/ my own tweets 2015-24): wolfganghuber.github.io/tweets/index... github.com/wolfganghube...

Thanks for the shout out! We will preprint this soon (and submit to CRAN), but R package is ready to use from Github (feedback welcome!)

Thanks for the shout out! Mike is among our faculty along with @wkhuber.bsky.social, Charlotte Soneson, Vince Carey, Robert Gentleman and many others! Come for the data science stay for the Dolomites! (Or the other way around! 🙃)

CSAMA is a one-week course in Biological Data Science, held in Italy in late June. This year organized by @davi1893.bsky.social. Topics from genomics to proteomics to single cell, statistical methods, the R/Bioconductor framework for visualization and reproducible analysis csama2024.bioconductor.eu

There is a scientific fraud epidemic — and we are ignoring the cure Rooting out manipulation should not depend on dedicated amateurs who take personal legal risks for the greater good Anjana Ahuja writes at Financial Times www.ft.com/content/c886...

Hello World! Thanks @wkhuber.bsky.social for the invite!