nf-core<p>Pipeline release! nf-core/scrnaseq v4.0.0 - 4.0.0!</p><p>Please see the changelog: <a href="https://github.com/nf-core/scrnaseq/releases/tag/4.0.0" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">github.com/nf-core/scrnaseq/re</span><span class="invisible">leases/tag/4.0.0</span></a></p><p><a href="https://mstdn.science/tags/10xgenomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>10xgenomics</span></a> <a href="https://mstdn.science/tags/10xgenomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>10xgenomics</span></a> <a href="https://mstdn.science/tags/alevin" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>alevin</span></a> <a href="https://mstdn.science/tags/bustools" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bustools</span></a> <a href="https://mstdn.science/tags/cellranger" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>cellranger</span></a> <a href="https://mstdn.science/tags/kallisto" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>kallisto</span></a> <a href="https://mstdn.science/tags/rnaseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>rnaseq</span></a> <a href="https://mstdn.science/tags/singlecell" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>singlecell</span></a> <a href="https://mstdn.science/tags/starsolo" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>starsolo</span></a> <a href="https://mstdn.science/tags/nfcore" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>nfcore</span></a> <a href="https://mstdn.science/tags/openscience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>openscience</span></a> <a href="https://mstdn.science/tags/nextflow" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>nextflow</span></a> <a href="https://mstdn.science/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bioinformatics</span></a></p>
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#cellranger
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nf-core<p>Pipeline release! nf-core/scrnaseq v3.0.0 - 3.0.0!</p><p>Please see the changelog: <a href="https://github.com/nf-core/scrnaseq/releases/tag/3.0.0" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">github.com/nf-core/scrnaseq/re</span><span class="invisible">leases/tag/3.0.0</span></a></p><p><a href="https://mstdn.science/tags/10xgenomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>10xgenomics</span></a> <a href="https://mstdn.science/tags/10xgenomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>10xgenomics</span></a> <a href="https://mstdn.science/tags/alevin" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>alevin</span></a> <a href="https://mstdn.science/tags/bustools" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bustools</span></a> <a href="https://mstdn.science/tags/cellranger" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>cellranger</span></a> <a href="https://mstdn.science/tags/kallisto" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>kallisto</span></a> <a href="https://mstdn.science/tags/rnaseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>rnaseq</span></a> <a href="https://mstdn.science/tags/singlecell" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>singlecell</span></a> <a href="https://mstdn.science/tags/starsolo" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>starsolo</span></a> <a href="https://mstdn.science/tags/nfcore" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>nfcore</span></a> <a href="https://mstdn.science/tags/openscience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>openscience</span></a> <a href="https://mstdn.science/tags/nextflow" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>nextflow</span></a> <a href="https://mstdn.science/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bioinformatics</span></a></p>
nf-core<p>Pipeline release! nf-core/scrnaseq v2.7.1 - 2.7.1!</p><p>Please see the changelog: <a href="https://github.com/nf-core/scrnaseq/releases/tag/2.7.1" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">github.com/nf-core/scrnaseq/re</span><span class="invisible">leases/tag/2.7.1</span></a></p><p><a href="https://mstdn.science/tags/10x" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>10x</span></a>-genomics <a href="https://mstdn.science/tags/10xgenomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>10xgenomics</span></a> <a href="https://mstdn.science/tags/alevin" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>alevin</span></a> <a href="https://mstdn.science/tags/bustools" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bustools</span></a> <a href="https://mstdn.science/tags/cellranger" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>cellranger</span></a> <a href="https://mstdn.science/tags/kallisto" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>kallisto</span></a> <a href="https://mstdn.science/tags/rna" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>rna</span></a>-seq <a href="https://mstdn.science/tags/single" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>single</span></a>-cell <a href="https://mstdn.science/tags/star" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>star</span></a>-solo <a href="https://mstdn.science/tags/nfcore" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>nfcore</span></a> <a href="https://mstdn.science/tags/openscience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>openscience</span></a> <a href="https://mstdn.science/tags/nextflow" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>nextflow</span></a> <a href="https://mstdn.science/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bioinformatics</span></a></p>
nf-core<p>Pipeline release! nf-core/scrnaseq v2.7.0 - 2.7.0!</p><p>Please see the changelog: <a href="https://github.com/nf-core/scrnaseq/releases/tag/2.7.0" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">github.com/nf-core/scrnaseq/re</span><span class="invisible">leases/tag/2.7.0</span></a></p><p><a href="https://mstdn.science/tags/10x" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>10x</span></a>-genomics <a href="https://mstdn.science/tags/10xgenomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>10xgenomics</span></a> <a href="https://mstdn.science/tags/alevin" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>alevin</span></a> <a href="https://mstdn.science/tags/bustools" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bustools</span></a> <a href="https://mstdn.science/tags/cellranger" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>cellranger</span></a> <a href="https://mstdn.science/tags/kallisto" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>kallisto</span></a> <a href="https://mstdn.science/tags/rna" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>rna</span></a>-seq <a href="https://mstdn.science/tags/single" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>single</span></a>-cell <a href="https://mstdn.science/tags/star" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>star</span></a>-solo <a href="https://mstdn.science/tags/nfcore" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>nfcore</span></a> <a href="https://mstdn.science/tags/openscience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>openscience</span></a> <a href="https://mstdn.science/tags/nextflow" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>nextflow</span></a> <a href="https://mstdn.science/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bioinformatics</span></a></p>
MultiQC<p>I'm very happy to announce that MultiQC v1.15 was just released! 🎉 </p><p><a href="https://github.com/ewels/MultiQC/releases/tag/v1.15" rel="nofollow noopener" target="_blank"><span class="invisible">https://</span><span class="ellipsis">github.com/ewels/MultiQC/relea</span><span class="invisible">ses/tag/v1.15</span></a></p><p>It comes with 🐛 fixes for <a href="https://mstdn.science/tags/10xGenomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>10xGenomics</span></a> <a href="https://mstdn.science/tags/CellRanger" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>CellRanger</span></a> fix, <a href="https://mstdn.science/tags/mosdepth" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>mosdepth</span></a> tweaks, and supports a new tool <a href="https://mstdn.science/tags/Librarian" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Librarian</span></a> to predict library type from FastQ base composition 🕵🏻♂️ 🧬plus much more!</p><p>Also included is a ~5-7 fold speed-up in the initial file search. This will shave off a chunk of run-time off for people generating big reports 🏎💨</p><p>Thanks to Vlad Savelyev for this with a hat tip to Pontus Höjer at the end 🙏🏻</p>
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