In case you missed it: NEW scholarship opportunities to attend GBCC2025 are now open! We are thrilled to offer this opportunity to our community and hope to see you there!
Apply now: https://forms.gle/WKoLb5NUR6FVmeRM9
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Announcing our first GBCC2025 keynote speaker: Charlotte Soneson!
Charlotte is a leading computational biologist at the Friedrich Miescher Institute in Basel, Switzerland, and she is renowned for her contributions to the Bioconductor project and the development of bioinformatics tools like einprot. Recipient of the Bioconductor Award (2021) and Ruth Chiquet Prize (2023), Charlotte's talk is not to be missed!
Learn more: https://csoneson.github.io/
csoneson.github.ioCharlotte Soneson
GBCC2025 Poster Abstracts Deadline Extended
Good news! The deadline for submitting your abstract for a poster presentation at GBCC2025 has been extended to May 9th. Join us at Cold Spring Harbor, June 23–26.
We’re looking forward to seeing your work!
Submit here: https://gxy.io/GBCC-abstracts
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.
Bioconductor 3.21 is released!
A huge thank you to all developers and community members for your contributions.
Explore what’s new in the full release announcement:
https://bioconductor.org/news/bioc_3_21_release/
bioconductor.orgBioconductor - Bioconductor 3.21 ReleasedThe Bioconductor project aims to develop and share open source software for precise and repeatable analysis of biological data. We foster an inclusive and collaborative community of developers and data scientists.
Today’s the Deadline for GBCC Scholarship Applications!
Be sure to apply now for the JXTX + GBCC2025 Scholarships to attend GBCC2025! Don’t miss this wonderful opportunity to be part of the first-ever joint Galaxy & Bioconductor conference.
https://jxtxfoundation.org/news/2025-2-27-gbcc/
JXTX FoundationJXTX + GBCC 2025 ScholarshipsJXTX + GBCC 2025 Scholarships
Last Call for Abstract Submissions for GBCC2025! 
There’s still time to present your research at GBCC2025—submit your abstract by tomorrow, April 8th, 2025!
gbcc2025.bioconductor.org
Many thanks to Zuguang Gu for the wonderful #Bioconductor package #ComplexHeatmaps. Fantastically documented and useful.
GitHubGitHub - jokergoo/ComplexHeatmap: Make Complex HeatmapsMake Complex Heatmaps . Contribute to jokergoo/ComplexHeatmap development by creating an account on GitHub.
Bioconductor Kenya Course Kickoff! 
Our first Bioconductor course in Africa started in Nairobi! Day 1 featured learning and collaboration with Laurent Gatto, and Michael Landi. Sessions later this week by Fabricio Almeida-Silva, Laurah Ondari, and Zedias Chikwambi. Thanks to CZI and UL Global for funding.
#Bioconductor #Bioinformatics #RProgramming #Carpentries #Africa
GBCC2025 Training Topics 
GBCC2025 is coming soon! We want to hear from you:
- Topics you're interested in learning about
- Interest in leading a session
Fill out the form by March 21st to help shape our training schedule!
https://forms.gle/i34Ag8SHMtBAmpPh7
Thanks! 
For more information about the Galaxy Bioconductor Community Conference (June 23 - 26, 2025), see the GBCC2025 website: https://gbcc2025.org
Google DocsExpression of interest for GBCC2025 training topicsGBCC2025 is coming up soon and we'd like to hear from you! This year, we're doing things a little differently with our joint conference between Galaxy and Bioconductor. There will be 10 training sessions, each lasting 1.5 hours.
Please fill out this form to:
Indicate the topics you are interested in learning about at GBCC this year.
Express your interest in leading a training session (optional).
Note: This year, there are no abstract submissions for package demos or workshops, only talks and posters. If you want to lead a training session, please use this form. If you're interested in giving a talk or presenting a poster, please submit through the conference abstract submission page.
Fill out this form by Friday, March 21st, so that we can create a training schedule that better serves all of us in the Galaxy and Bioconductor community.
Thank you for your input!
The GBCC2025 Organizing Committee
New Bioconductor blog post on mentoring in Outreachy!
Svetlana Ugarcina Perovic shares her experiences with the Microbiome Study Curation project and open science. Check it out here: https://buff.ly/43aPLAc
Interested in mentoring? Submit a project by March 7, 2025, 4 PM UTC at #Outreachy: https://buff.ly/3wzLxne
Thanks Svetlana!
Bioconductor community blogOpen Science Mentoring: My Journey with Outreachy Mentees – Bioconductor community blogA blog for the Bioconductor community!
GBCC2025 Abstracts & Registration Now Open!
Submit your abstract or register to join the first-ever Galaxy & Bioconductor Community Conference, June 23-26, 2025, at Cold Spring Harbor Laboratory, NY.
Abstract Deadline: April 1, 2025 Register/Submit: https://gbcc2025.org
gbcc2025.bioconductor.orgGBCC2025
Exciting news! Join us for a Bioconductor workshop in Nairobi, Kenya, from March 24–28, 2025! This week-long, in-person course will cover genomic data analysis and RNA-seq workflows using R/Bioconductor. Led by local and international experts, it’s a great opportunity to build practical bioinformatics skills.
Dates: March 24–28, 2025
Location: Nairobi, Kenya
Learn more and sign up for updates: https://training.bioconductor.org/workshops/2025-03-Nairobi/
training.bioconductor.orgindexJoin us for a comprehensive week-long Bioconductor in-person course covering genomic data analysis and RNA-seq using R and Bioconductor.
#Bioconductor's BiocGenerics is considering adding dplyr as a dependency to avoid #rstats namespace conflicts within @bioconductor :
You can read more information about the change here: https://github.com/Bioconductor/BiocGenerics/issues/20
There have been a discussion on their slack on developer-forum's channel too.
GitHubAdd dplyr to BiocGenerics's Depends field · Issue #20 · Bioconductor/BiocGenerics
Exciting opportunity for @thecarpentries Instructors!
We’re seeking instructors for the 2025 Bioconductor African Courses in Nairobi, Kenya, and West Africa. Teach R/Bioconductor or RNA-seq analysis to foster local capacity and collaboration.
Carpentries certification required
One-week commitment
Travel & accommodation covered
Interested? Complete our expression of interest form by Oct 21, 2024
https://forms.gle/oHpbu2V9tzLukJ4j8
Google DocsBioconductor African Courses 2025 - Instructor Expression of InterestWe are excited to announce the upcoming Bioconductor African Courses scheduled for 2025. The first course will take place in Nairobi, Kenya in March/April, with a second course planned for West Africa a few months later. These courses aim to build local capacity and foster a strong network of learners and instructors across Africa.
Course Structure:
Each weeklong course consists of two teaching modules and a BYO data day:
Monday & Tuesday: bioc-intro module (Introduction to genomic data analysis with R and Bioconductor)
Wednesday & Thursday: bioc-rnaseq module (Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor)
Friday: Bring your own (BYO) data day
What We're Looking For:
We are seeking Carpentries-certified instructors to teach these modules. Each module will be taught by a pair of instructors—one international and one based in Africa. Additional local instructors may be included to provide more teaching opportunities.
Instructors will teach one module (either bioc-intro or bioc-rnaseq) but are expected to stay for the full week to assist as a helper in the other module and the final BYO data day. This fosters collaboration and community-building among participants and instructors. You can express interest in teaching either the Nairobi course, the West Africa course, or both.
Funding:
Thanks to funding from the Chan Zuckerberg Initiative (CZI), travel and accommodation expenses will be covered for instructors. For more details on this and other CZI-funded Bioconductor projects, please check out our blog post.
How to Express Interest:
Please complete our expression of interest form by Monday, October 21st, 2024. The form will ask for your certification status, area of expertise, and preferred module and location.
We are considering the following dates for the Nairobi course:
March 24-28, 2025, or
March 31-April 4, 2025
Dates for the West Africa course will be confirmed later. We aim to finalise the instructor line-up for Nairobi by the end of the year and will follow up regarding West Africa soon after.
Should you have any questions, feel free to reach out to us directly.
Thank you for your interest in contributing to this important initiative. We look forward to hearing from you!
Maria Doyle
Bioconductor Community Manager
Email: maria.doyle@ul.ie
Nous commençons la saison 2024-2025 en douceur en vous partageant une petite astuce en R pour convertir les identifiants en symboles de gènes 
https://bioinfo-fr.net/r-convertir-des-ensembl-ids-en-symboles-de-genes
#bioinfofr #Rstat #bioconductor
Bioinfo-fr.net · R : Convertir des Ensembl IDs en symboles de gènes - Bioinfo-fr.netLorsque l'on traite des données de RNA-seq, il arrive très souvent de se retrouver avec une matrice de quantification de l'expression des gènes (un tableau avec le nombre de reads par gène) dont le nom des gènes est représenté par leur identifiant (ou ID) de chez Ensembl (ex. : "ENSG00000128573") et non par leurs symboles […]
We’re pleased to announce that Posit Package Manager 2024.08.0 is now available! 
This release provides support for remote administration of Package Manager, more advanced configurable #logging, improvements to #Bioconductor performance, and more.
Learn more on our blog: https://posit.co/blog/posit-package-manager-2024-08-0/
En réponse à galaxyproject
@galaxyproject looking forward to return to Cold Spring Harbor 15 years after the first Galaxy conference 
#GBCC2025 #Bioconductor #usegalaxy
𝗔𝗻𝗻𝗼𝘂𝗻𝗰𝗶𝗻𝗴 𝗚𝗕𝗖𝗖 𝟮𝟬𝟮𝟱: 𝗧𝗵𝗲 𝟭𝘀𝘁 𝗷𝗼𝗶𝗻𝘁 𝗰𝗼𝗻𝗳𝗲𝗿𝗲𝗻𝗰𝗲 𝗯𝗲𝘁𝘄𝗲𝗲𝗻 𝗕𝗶𝗼𝗰𝗼𝗻𝗱𝘂𝗰𝘁𝗼𝗿 & 𝗚𝗮𝗹𝗮𝘅𝘆!
Join us June 23-26 at Cold Spring Harbor for workshops, talks, and more. Stay tuned for updates, including a logo contest! Read more in our shared blog post: https://blog.bioconductor.org/posts/2024-09-03-gbcc2025-announcement/
