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@DanielBDimitrov Great source of tissue and disease-specific atlases: teichlab.org/data

In this single-cell study, we compare immune-cell profiles before and after machine perfusion of transplant livers. Once again using BD Rhapsody, we took a closer look at Neutrophils. Check out Stefan Salcher's thread for more details 👇

Getting started with the scverse hackaton 🧑‍💻 we co-host with Oliver Stegle 's lab, with focus on interoperability and knowledge integration - we hope to contribute to the later with OmniPath and BioCypher. Thanks @DanielBDimitrov and Danila for organizing it!

Had a great time! Thanks to organizers and attendees! I'd especially like to thank Bioconductor's @wolfgangkhuber, Mike Smith, and Martin Morgan for coming out. It's fantastic to work on interoperability with you, and looking forward to doing more in the future!

It was fantastic to meet so many scverse contributors in person! I also think we made good progress in those few days 👇

📢 Two new packages for single-cell analysis just got added to our ecosystem 🎉. Here’s a short overview: scverse.org/packages/#ecos…

Follow-up meeting on Genomic Ranges support for AnnData! Join our next community meeting (2023-05-16 18:00 CEST) if you are interested. Joining info: hackmd.io/VfVLKb3ETGKN2j…

Reminder: scverse community meeting about Genomic Ranges support tomorrow. We start with a short intro to the BiocPy GenomicRanges implementation by Jayaram Kancherla. more details: hackmd.io/VfVLKb3ETGKN2j…

Tonight at 18:00 CEST Giovanni Palla will present SpatialData, our new data structure for experiments with spatial resolution! Join our community meeting if you are interested! More details + zoom link: hackmd.io/VfVLKb3ETGKN2j…

The #OpenSource project scverse is now part of NumFOCUS as a sponsored project! Join us in welcoming them and helping advance open science initiatives. Learn more about the project here: numfocus.org/project/scverse! #OpenScience #DataScience #AI

Today our Human Lung Cell Atlas (HLCA) paper came out in Nature Medicine nature.com/articles/s4159…! The HLCA includes 2.4M cells from 486 individuals and 49 datasets. Check out this tweetorial to learn more about how we built it, and how you can use it (1/21)

Ever wondered what the equivalent of differential gene expression is for cell-cell communication ? Look no further...it's MultiNicheNet, the first statistically sound framework for multi-sample multi-condition comparison of intercellular communication 👉doi.org/10.1101/2023.0…

Bonne journée 😬

For anyone who is working with Personalis data: We made an R package that automates loading the data into a MultiAssayExperiment: github.com/Boehringer-Ing…

It's happening! 🧬🤓🧑‍💻 #scverse2024 Thrilled to see so much engagement in person. scverse 🙌

Felix Petschko presented our v0.18 release of scirpy at the scverse conference today: - 16x speedup of hamming distance - 120x speedup of clonotype clustering - 100x speedup by adding tcdist3 metric compared to previous alignment metric scirpy.scverse.org/en/latest/chan…