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Bioconductor<p>📝 New Bioconductor blog post!</p><p>Written during <a href="https://genomic.social/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>GBCC2025</span></a> CoFest, this post highlights recent work to bring Bioconductor tools into Galaxy, featuring training materials, wrapper examples, and ideas for tool developers. </p><p>Read more 👉 <a href="https://blog.bioconductor.org/posts/2025-07-03-bioc-to-galaxy/" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">blog.bioconductor.org/posts/20</span><span class="invisible">25-07-03-bioc-to-galaxy/</span></a></p><p><a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioinformatics</span></a> <a href="https://genomic.social/tags/RStats" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RStats</span></a> <a href="https://genomic.social/tags/GalaxyProject" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>GalaxyProject</span></a> <a href="https://genomic.social/tags/OpenScience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>OpenScience</span></a></p>
Bioconductor<p>Thank you to everyone who made <a href="https://genomic.social/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>GBCC2025</span></a> such a great week!</p><p>From keynotes and technical talks to CoFest projects, it was a brilliant example of cross-community collaboration between Bioconductor and Galaxy 💻🧬</p><p><a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/GalaxyProject" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>GalaxyProject</span></a> <a href="https://genomic.social/tags/OpenScience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>OpenScience</span></a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioinformatics</span></a></p>
Bioconductor<p>📝 New blog post from the Bioconductor Training Committee!</p><p>We’re collaborating with <span class="h-card" translate="no"><a href="https://ecoevo.social/@physaliacourses2" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>physaliacourses2</span></a></span> to offer co-branded training in bioinformatics and computational biology.</p><p>Read more 👉 <a href="https://blog.bioconductor.org/posts/2025-06-20-physalia-collaboration/" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">blog.bioconductor.org/posts/20</span><span class="invisible">25-06-20-physalia-collaboration/</span></a></p><p><a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioinformatics</span></a> <a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/OpenScience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>OpenScience</span></a></p>
Bioconductor<p>📝 New Bioconductor Blog Post!</p><p>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.</p><p>Check it out 👉 <a href="https://blog.bioconductor.org/posts/2025-05-26-ask" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">blog.bioconductor.org/posts/20</span><span class="invisible">25-05-26-ask</span></a></p><p><a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/RStats" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RStats</span></a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioinformatics</span></a> <a href="https://genomic.social/tags/DataScience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DataScience</span></a> <a href="https://genomic.social/tags/OpenScience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>OpenScience</span></a></p>
Bioconductor<p>🔔 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!</p><p>Apply now: <a href="https://forms.gle/WKoLb5NUR6FVmeRM9" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="">forms.gle/WKoLb5NUR6FVmeRM9</span><span class="invisible"></span></a> </p><p><a href="https://genomic.social/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>GBCC2025</span></a> <a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/UseGalaxy" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>UseGalaxy</span></a> <a href="https://genomic.social/tags/DataScience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DataScience</span></a></p>
Laurent Gatto<p>Hello, here's my fediverse re- <a href="https://fediscience.org/tags/introduction" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>introduction</span></a> since I moved to <a href="https://fediscience.org/tags/fediscience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>fediscience</span></a> </p><p>I'm a computational biologist/bioinformatician, professor at UCLouvain in Brussels. I work with various types of omics data, with a special interest in <a href="https://fediscience.org/tags/MassSpectrometry" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>MassSpectrometry</span></a> and <a href="https://fediscience.org/tags/proteomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>proteomics</span></a>. I (co-)develop and maintain several <a href="https://fediscience.org/tags/rstats" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>rstats</span></a> and <a href="https://fediscience.org/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioconductor</span></a> packages. In addition to R, I use <a href="https://fediscience.org/tags/emacs" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>emacs</span></a> and <a href="https://fediscience.org/tags/orgmode" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>orgmode</span></a> quite a bit.</p><p>Thanks for reading!</p>
Lluís Revilla<p>Some <a href="https://fosstodon.org/tags/R" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>R</span></a> <a href="https://fosstodon.org/tags/rstats" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>rstats</span></a> about the packages on the repositories: <a href="https://fosstodon.org/tags/CRAN" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>CRAN</span></a> has 722 packages that use Bioconductor (3%), <a href="https://fosstodon.org/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioconductor</span></a> has 2802 packages that use CRAN's packages (77%). </p><p>1.3% CRAN and 0.6% Bioconductor respectively use package outside these two repositories. But 91% and 93% use packages on their respective repos. 8% and 3% do not have any dependency on external packages (but could depend on system dependencies).</p>
Bioconductor<p>🎓🌍 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. <br><a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Bioinformatics</span></a> <a href="https://genomic.social/tags/RProgramming" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RProgramming</span></a> <a href="https://genomic.social/tags/Carpentries" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Carpentries</span></a> <a href="https://genomic.social/tags/Africa" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Africa</span></a></p>

🎓 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
➡️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