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#Bioconductor

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Bioconductor<p>Bioconductor 3.21 is released!</p><p>A huge thank you to all developers and community members for your contributions.<br>Explore what’s new in the full release announcement:<br><a href="https://bioconductor.org/news/bioc_3_21_release/" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">bioconductor.org/news/bioc_3_2</span><span class="invisible">1_release/</span></a></p><p><a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/RStats" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>RStats</span></a></p>
Bioconductor<p>🚨 Today’s the Deadline for GBCC Scholarship Applications! 🚨</p><p>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 &amp; Bioconductor conference. <br><a href="https://jxtxfoundation.org/news/2025-2-27-gbcc/" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">jxtxfoundation.org/news/2025-2</span><span class="invisible">-27-gbcc/</span></a> </p><p><a href="https://genomic.social/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>GBCC2025</span></a> <a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/UseGalaxy" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>UseGalaxy</span></a></p>
Bioconductor<p>⏰ Last Call for Abstract Submissions for GBCC2025! ⏳</p><p>There’s still time to present your research at GBCC2025—submit your abstract by tomorrow, April 8th, 2025!</p><p>gbcc2025.bioconductor.org </p><p><a href="https://genomic.social/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>GBCC2025</span></a> <a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/UseGalaxy" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>UseGalaxy</span></a></p>
Cosmin Saveanu<p>Many thanks to Zuguang Gu for the wonderful <a href="https://framapiaf.org/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> package <a href="https://framapiaf.org/tags/ComplexHeatmaps" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>ComplexHeatmaps</span></a>. Fantastically documented and useful.</p><p><a href="https://github.com/jokergoo/ComplexHeatmap" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">github.com/jokergoo/ComplexHea</span><span class="invisible">tmap</span></a></p><p><a href="https://framapiaf.org/tags/rstats" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>rstats</span></a> <a href="https://framapiaf.org/tags/heatmap" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>heatmap</span></a> <a href="https://framapiaf.org/tags/dataviz" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>dataviz</span></a></p>
Lluís Revilla<p>Some <a href="https://fosstodon.org/tags/R" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>R</span></a> <a href="https://fosstodon.org/tags/rstats" class="mention hashtag" rel="nofollow noopener noreferrer" 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 noreferrer" 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 noreferrer" 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>🎉 Announcing the EuroBioC2025 Sticker Design Winner! 🎉</p><p>🏆 Winner: Chaima Hkimi</p><p>🎨 Chaima’s design draws on some of Barcelona’s most iconic landmarks, featuring the Sagrada Família and the vibrant colours of Park Güell. She even swapped the 'i' in 'BioC' for the Bioconductor logo — a creative nod to the project!</p><p>Thanks to everyone who submitted a design. You’ll be able to pick up Chaima’s sticker at EuroBioC2025!</p><p><a href="https://genomic.social/tags/EuroBioC2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>EuroBioC2025</span></a> <a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioinformatics</span></a> <a href="https://genomic.social/tags/RStats" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>RStats</span></a> <a href="https://genomic.social/tags/StickerContest" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>StickerContest</span></a></p>
Bioconductor<p>⏳ Join us at GBCC2025! 🚀 </p><p>🔹 Early Bird Registration ends March 31st. Register Now: <a href="https://gbcc2025.bioconductor.org/registration/conference/" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">gbcc2025.bioconductor.org/regi</span><span class="invisible">stration/conference/</span></a><br>🔹 Submit abstracts by April 1st: <a href="https://gbcc2025.bioconductor.org/abstracts/submission_guidelines/" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">gbcc2025.bioconductor.org/abst</span><span class="invisible">racts/submission_guidelines/</span></a><br>🔹 Scholarships available: <a href="https://gbcc2025.bioconductor.org/sponsorships/sponsor_info/" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">gbcc2025.bioconductor.org/spon</span><span class="invisible">sorships/sponsor_info/</span></a><br>🔹 Sponsorship opportunities: <a href="https://jxtxfoundation.org/news/2025-2-27-gbcc/" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">jxtxfoundation.org/news/2025-2</span><span class="invisible">-27-gbcc/</span></a></p><p><a href="https://genomic.social/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>GBCC2025</span></a> <a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/UseGalaxy" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>UseGalaxy</span></a></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 noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioinformatics</span></a> <a href="https://genomic.social/tags/RProgramming" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>RProgramming</span></a> <a href="https://genomic.social/tags/Carpentries" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Carpentries</span></a> <a href="https://genomic.social/tags/Africa" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Africa</span></a></p>
galaxyproject<p>🎓 GBCC2025 Training Topics 🌟</p><p>GBCC2025 is coming soon! We want to hear from you:</p><p>- Topics you're interested in learning about<br>- Interest in leading a session</p><p>Fill out the form by March 21st to help shape our training schedule!</p><p>🔗 <a href="https://forms.gle/i34Ag8SHMtBAmpPh7" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="">forms.gle/i34Ag8SHMtBAmpPh7</span><span class="invisible"></span></a> </p><p>Thanks! 🙏 </p><p>For more information about the Galaxy Bioconductor Community Conference (June 23 - 26, 2025), see the GBCC2025 website: <a href="https://gbcc2025.org" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="">gbcc2025.org</span><span class="invisible"></span></a></p><p><a href="https://mstdn.science/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>GBCC2025</span></a> <a href="https://mstdn.science/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://mstdn.science/tags/DataScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>DataScience</span></a> <a href="https://mstdn.science/tags/OpenScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>OpenScience</span></a> <a href="https://mstdn.science/tags/UseGalaxy" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>UseGalaxy</span></a></p>
Bioconductor<p>🎓 GBCC2025 Training Topics 🌟</p><p>GBCC2025 is coming soon! We want to hear from you:</p><p>- Topics you're interested in learning about<br>- Interest in leading a session</p><p>Fill out the form by March 21st to help shape our training schedule!</p><p>🔗 <a href="https://buff.ly/vCQw8pR" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="">buff.ly/vCQw8pR</span><span class="invisible"></span></a> </p><p>Thanks! 🙏 </p><p><a href="https://genomic.social/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>GBCC2025</span></a> <a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/UseGalaxy" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>UseGalaxy</span></a> <a href="https://genomic.social/tags/DataScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>DataScience</span></a> <a href="https://genomic.social/tags/OpenScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>OpenScience</span></a></p>
Bioconductor<p>📝 New Bioconductor Blog Post on CAB and its new co-chair!</p><p>Stevie Pederson introduces themselves and shares insights about the Community Advisory Board (CAB).<br>Check it out here: <a href="https://buff.ly/EZWEg0A" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="">buff.ly/EZWEg0A</span><span class="invisible"></span></a> </p><p><a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioinformatics</span></a> <a href="https://genomic.social/tags/RStats" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>RStats</span></a> <a href="https://genomic.social/tags/OpenScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>OpenScience</span></a></p>
Bioconductor<p>📅 The tidyomics group's next meeting is on Wednesday, March 12th at 4 PM NY / 9 PM London / 8 AM (Thursday) Melbourne. They'll discuss enhancing the SummarizedExperiment display and seek feedback on the tidyprint package. Check Bioconductor Slack <a href="https://genomic.social/tags/tidiness" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>tidiness</span></a>-in-bioc channel or Bioconductor events page calendar for more info: <a href="https://buff.ly/rdhL3jL" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="">buff.ly/rdhL3jL</span><span class="invisible"></span></a> </p><p><a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/Tidyomics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Tidyomics</span></a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioinformatics</span></a> <a href="https://genomic.social/tags/RStats" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>RStats</span></a></p>
kupac^ESC:wq<p>Desperate bioinformatician looking for a function to calculate coverage based on a list of intervals. Something like summarising genomicranges to coverage values. Do you know something like that?</p><p>UPDATE: `GenomicRanges::coverage` is a good candidate.</p><p><a href="https://functional.cafe/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>bioinformatics</span></a> <a href="https://functional.cafe/tags/rstats" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>rstats</span></a> <a href="https://functional.cafe/tags/bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>bioconductor</span></a></p>
Dr. Andrea Komljenovic 🇨🇭🇭🇷<p>Related to Barcelona Bioconductor sticker contest, I just wanted to draw your attention to my awesome hex sticker for my Spatial Multi-Omics book with Bioconductor coming up very soon! <a href="https://fosstodon.org/tags/bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>bioconductor</span></a> <a href="https://fosstodon.org/tags/sticker" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>sticker</span></a> <a href="https://fosstodon.org/tags/stickering" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>stickering</span></a> <a href="https://fosstodon.org/tags/stickercontest" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>stickercontest</span></a> <a href="https://fosstodon.org/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>bioinformatics</span></a> <a href="https://fosstodon.org/tags/mebarbie" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>mebarbie</span></a> <a href="https://fosstodon.org/tags/andreabarbie" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>andreabarbie</span></a> <a href="https://fosstodon.org/tags/barbietech" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>barbietech</span></a> <a href="https://fosstodon.org/tags/vienna" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>vienna</span></a> <a href="https://fosstodon.org/tags/austria" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>austria</span></a>🇦🇹</p>
Bioconductor<p>📣 GBCC2025 Abstracts &amp; Registration Now Open!</p><p>Submit your abstract or register to join the first-ever Galaxy &amp; Bioconductor Community Conference, June 23-26, 2025, at Cold Spring Harbor Laboratory, NY.</p><p>🗓 Abstract Deadline: April 1, 2025<br>🔗 Register/Submit: <a href="https://gbcc2025.org" rel="nofollow noopener noreferrer" translate="no" target="_blank"><span class="invisible">https://</span><span class="">gbcc2025.org</span><span class="invisible"></span></a></p><p><a href="https://genomic.social/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>GBCC2025</span></a> <a href="https://genomic.social/tags/Bioconductor" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>Bioconductor</span></a> <a href="https://genomic.social/tags/DataScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>DataScience</span></a> <a href="https://genomic.social/tags/OpenSource" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#<span>OpenSource</span></a></p>
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