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@lavergnetho without being a sys admin, zulip seems to work fine for #bioconductor #community
#Bioconductor
2 Beiträge2 Beteiligte0 Beiträge heute
Explore phylogenetic analysis from genome to tree! Basic workflow with #rstats #bioconductor . Learnt to work with large genomic data. Extract 16S rRNA from 10K+ E.coli strains using dataset dehydrate, barrnap for extraction, rapidNJ for tree building & FigTree for visualization.
Everyday Is A School DayLearning The Basics of Phylogenetic Analysis | Everyday Is A School Day🧬🔬 Explore phylogenetic analysis from genome to tree! Basic workflow with R/Bioconductor. Learnt to work with large genomic dataset. Extract 16S rRNA from 10K+ E.coli strains using dataset dehydrate, barrnap for extraction, rapidNJ for tree building & FigTree for visualization.
Readers who want a local copy to peruse should note that W. Huber recommends using `wget` to download a copy of the book from his own website using this command (I've done this myself):
```
wget -r --random-wait --wait=1 https://www.huber.embl.de/msmb/
```
Also, Huber's website version looks like it's using the **latest** releases of #RStats and #Bioconductor
Modern Statistics for Modern BiologyModern Statistics for Modern BiologyIf you are a biologist and want to get the best out of the powerful methods of modern computational statistics, this is your book.
One week left to register!
Join us at EuroBioC2025 in Barcelona and the Bioconductor Carpentry Workshops for hands-on learning, community building, and cutting-edge bioinformatics.
Registration closes August 28 — don’t miss out!
https://eurobioc2025.bioconductor.org/
eurobioc2025.bioconductor.orgEuropean Bioconductor Conference 2025 – EuroBioC2025The European Bioconductor Conference (EuroBioC2025) will take place on September 17th to 19th, 2025, in Barcelona, Spain. EuroBioC2025 will bring together the Bioconductor community to showcase the latest cutting-edge developments on the Bioconductor software packages, as well as on broader emerging technologies impacting computational biology.
Very excited for my first day at my new job at EMBL in Heidelberg, where I'm going to maintain & develop #Bioconductor #rstats packages!
The bioconductor and the molecular biology parts are quite new to me so I'd happy to connect with anyone in my network working on these things.
Update: Registration Deadline Extended!
You now have until August 28 to register for EuroBioC 2025 and the pre-conference Bioconductor Carpentry workshops 
If you haven’t signed up yet, there’s still time to join us in Barcelona this September!
eurobioc2025.bioconductor.orgEuropean Bioconductor Conference 2025 – EuroBioC2025The European Bioconductor Conference (EuroBioC2025) will take place on September 17th to 19th, 2025, in Barcelona, Spain. EuroBioC2025 will bring together the Bioconductor community to showcase the latest cutting-edge developments on the Bioconductor software packages, as well as on broader emerging technologies impacting computational biology.
Reminder: BioCAsia 2025 – Call for Workshops
We're putting together the Bioconductor event at ABACBS 2025 in Adelaide and would love to include your workshop!
If you’re working on something cool and hands-on with Bioconductor, consider submitting an EOI.
Sessions are 90 minutes, flexible format.
Deadline: August 1
Info + submission: https://biocasia2025.bioconductor.org
Let us know if you have questions or want to chat ideas.
biocasia2025.bioconductor.orgBioconductor
New blog post: Tagging Bioconductor packages with EDAM
Bioconductor community blogTagging Bioconductor packages with EDAM – Bioconductor community blogAdopting formal ontology for labeling Bioconductor software and data
It is still 3 weeks away but there will be a developer session about #Rust and #rStats for @bioconductor (and other interested developer) lead by Sun Wenji, and @josi among other 
-
developers 
.
I still don't know the link to the event but we know the date and hour, so mark your calendar 
July 28th at 17:00 to 18:00 CEST
I'll share more details as soon as I know them
New blog post: Bioconductor and ggplot2 4.0.0 – What’s Changing and How to Prepare
A major ggplot2 update (v4.0.0) is coming and may affect many Bioconductor packages. This post explains what’s changing, how to test your packages, and where to get help.
Read more: https://blog.bioconductor.org/posts/2025-07-07-ggplot2-update/
Bioconductor community blogBioconductor and ggplot2 4.0.0: What’s Changing and How to Prepare – Bioconductor community blogPreparing for the upcoming update - key changes, potential breakages, and what developers and users can do
New Bioconductor blog post!
Written during #GBCC2025 CoFest, this post highlights recent work to bring Bioconductor tools into Galaxy, featuring training materials, wrapper examples, and ideas for tool developers.
Read more 
https://blog.bioconductor.org/posts/2025-07-03-bioc-to-galaxy/
Bioconductor community blogBringing Bioconductor to Galaxy: A CoFest Collaboration – Bioconductor community blogWritten during CoFest at GBCC2025, this post shares training materials, introduces Galaxy tool wrapping, and previews what’s next for integrating Bioconductor tools in Galaxy.
Thank you to everyone who made #GBCC2025 such a great week!
From keynotes and technical talks to CoFest projects, it was a brilliant example of cross-community collaboration between Bioconductor and Galaxy 
Late-breaking poster call for #EuroBioC2025 is now open!
Submit by July 11 to present your work in Barcelona this September. https://forms.gle/ewTGdKzB2xyEg58f8 Notifications by July 15
Google DocsEuroBioC2025 late-breaking poster abstract submissionPlease fill the form below before the end of Friday July 11th, 2025, to submit an abstract for a poster to be considered for presentation at EuroBioC2025 in Barcelona on September 17-19, 2025 (https://eurobioc2025.bioconductor.org). Notification of acceptance will be sent on July 15th, but please contact us at eurobioc@bioconductor.org if you need an earlier notification for your own funding or visa applications.
Please note that submission of an abstract does not constitute registration for the conference - see https://eurobioc2025.bioconductor.org/pages/registration.html for how to register. If you have questions, reach out at eurobioc@bioconductor.org.
Two weeks in, and our move from Slack to Zulip is going great.
Thanks to everyone in the Bioconductor community for helping make the switch smooth and getting involved in the new space.
If you haven’t joined yet, come take a look:
https://chat.bioconductor.org https://blog.bioconductor.org/posts/2025-05-29-slack-to-zulip/
Big thanks to the https://fosstodon.org/@zulip team for supporting open-source communities.
Zulipcommunity-biocWelcome to the Bioconductor Zulip space! | We’ve moved from Slack to Zulip to ensure sustainable, searchable, and open communication for our community. | Why we moved * If you had a Bioconductor Slack account, click “Already have an account? Log in", then "Forgot your password?” and enter your Slack email to set a new Zulip password. | If you had a Bioconductor Slack account, click “Already have an account? Log in", then "Forgot your password?” and enter your Slack email to set a new Zulip password.
New Bioconductor Blog Post!
We’ve just launched the first in a new series by Vince Carey, founding contributor to Bioconductor and core developer, exploring the evolving complexity and value of the Bioconductor ecosystem.
Check it out https://blog.bioconductor.org/posts/2025-05-26-ask
Bioconductor community blogAsk and you shall receive – Bioconductor community blogDiscussion of evolving complexity and value of the Bioconductor ecosystem.
We’re wrapping up our 3-day Spatial Omics in R/
@bioconductor workshop!
A huge THANK YOU to Stefano,Malvika and all our attendees who made this event a success
Until next time — https://www.physalia-courses.org/courses-workshops/ 
#SpatialOmics #Bioconductor #RStats #itdyomics
EuroBioC2025 Registration is Open!
Join us in Barcelona, 17–19 September 2025 for the European Bioconductor Conference!
Developers, researchers, and educators working with Bioconductor and open-source bioinformatics tools are all welcome.
Talks, workshops, keynotes, and community discussions await. Register: https://eurobioc2025.bioconductor.org/pages/registration.html
Hope to see you there!
#Bioinformatics #Bioconductor #EuroBioC2025 #OpenScience
eurobioc2025.bioconductor.orgregistration – EuroBioC2025
Hello, here's my fediverse re- #introduction since I moved to #fediscience
I'm a computational biologist/bioinformatician, professor at UCLouvain in Brussels. I work with various types of omics data, with a special interest in #MassSpectrometry and #proteomics. I (co-)develop and maintain several #rstats and #Bioconductor packages. In addition to R, I use #emacs and #orgmode quite a bit.
Thanks for reading!
New Publication!
Our first paper on Bioconductor training from the Bioconductor Training Committee is now published in PLOS Computational Biology. We're pleased to share our work with the community.
Read here: https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1012925
Thank you to everyone involved for your contributions!
journals.plos.orgLearning and teaching biological data science in the Bioconductor communityModern biological research is increasingly data-intensive, leading to a growing demand for effective training in biological data science. In this article, we provide an overview of key resources and best practices available within the Bioconductor project—an open-source software community focused on omics data analysis. This guide serves as a valuable reference for both learners and educators in the field.
Time’s running out! Submit your abstract for #EuroBioC2025 by 24 April.
Join us this Sept in Barcelona to share your research, meet the #Bioconductor community & explore all things #Bioinformatics + #RStats.
https://eurobioc2025.bioconductor.org/pages/submissions.html