Pipeline release! nf-core/scnanoseq v1.1.0 - nf-core/scnanoseq v1.1.0 - Iron Alligator!

Please see the changelog: https://github.com/nf-core/scnanoseq/releases/tag/1.1.0

#10xgenomics #longreadsequencing #nanopore #scrnaseq #singlecell #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/scrnaseq v4.0.0 - 4.0.0!

Please see the changelog: https://github.com/nf-core/scrnaseq/releases/tag/4.0.0

#10xgenomics #10xgenomics #alevin #bustools #cellranger #kallisto #rnaseq #singlecell #starsolo #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/scrnaseq v3.0.0 - 3.0.0!

Please see the changelog: https://github.com/nf-core/scrnaseq/releases/tag/3.0.0

#10xgenomics #10xgenomics #alevin #bustools #cellranger #kallisto #rnaseq #singlecell #starsolo #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/scnanoseq v1.0.0 - nf-core/scnanoseq v1.0.0 - Titanium Toad!

Please see the changelog: https://github.com/nf-core/scnanoseq/releases/tag/1.0.0

#10xgenomics #long-read-sequencing #nanopore #scrna-seq #single-cell #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/scrnaseq v2.7.1 - 2.7.1!

Please see the changelog: https://github.com/nf-core/scrnaseq/releases/tag/2.7.1

#10x-genomics #10xgenomics #alevin #bustools #cellranger #kallisto #rna-seq #single-cell #star-solo #nfcore #openscience #nextflow #bioinformatics

Thinking about taking a job setting up pipelines for 10x Xenium spatial sequencing data. Anyone out there in the fediverse have experience or good resources to help me get a sense of what I’d be dealing with? #bioinformatics #Spatial #10xgenomics #genomics

Pipeline release! nf-core/scrnaseq v2.7.0 - 2.7.0!

Please see the changelog: https://github.com/nf-core/scrnaseq/releases/tag/2.7.0

#10x-genomics #10xgenomics #alevin #bustools #cellranger #kallisto #rna-seq #single-cell #star-solo #nfcore #openscience #nextflow #bioinformatics

Exciting #scRNAseq findings in mice reveal majour source of mural cells driving the development of the skin vasculature! We constructed the library using #10xGenomics technology and performed #Illumina sequencing from mouse embryonic skin
https://elifesciences.org/articles/69413

#SpaceRanger from #10XGenomics packaged the whole #ananconda suit in, that's insane!

Xenium + Visium + scRNA-seq on the adjacent sections to study breast cancer #10xgenomics
https://www.nature.com/articles/s41467-023-43458-x

I'm very happy to announce that MultiQC v1.15 was just released! 🎉

https://github.com/ewels/MultiQC/releases/tag/v1.15

It comes with 🐛 fixes for #10xGenomics #CellRanger fix, #mosdepth tweaks, and supports a new tool #Librarian to predict library type from FastQ base composition 🕵🏻‍♂️ 🧬plus much more!

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 🏎💨

Thanks to Vlad Savelyev for this with a hat tip to Pontus Höjer at the end 🙏🏻