markus

@ibio.dev

Computer Scientist with a passion for bioinformatics 💻🧬🧑‍🔬🧪. Postdoc Integrative Bioinformatics @LMU_Munich. Combining Networks and Single Cells.

Announcing the Ascona Workshop  “Spatial and Temporal Statistical Modeling in Molecular Biology”  in Ascona CH, 8-13 Sep 2024. Statistical, computational& ML methods& appln's for spatial biological data, from nucleus, spatial omics of tissues to ecosystems & planetary-scale biology spatialbio.net

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The nice part of commuting to university by local train (in Germany) is: you have enough time to think about your research, the next steps within a project, and how you can tackle existing challenges. And all of that, because coverage is so unreliable that you are not even distracted by Emails!

Landscape taken from train between Buchloe and Munich.

10X Genomics just made the source for CellRanger available (but not open source); github.com/10XGenomics/...! While I strongly advocate for using truly open tools for sc preprocessing e.g. github.com/COMBINE-lab/..., this is still a huge win for computational transparency in single cell analysis! 🖥️🧬

GitHub - COMBINE-lab/simpleaf: A rust framework to make using alevin-fry even simpler

A rust framework to make using alevin-fry even simpler - GitHub - COMBINE-lab/simpleaf: A rust framework to make using alevin-fry even simpler

github.com

The advantage of travelling by train to university in southern Germany - Nice view of the Allgäu and the Alps 🤗

View of Allgäu near Memmingen with Alps in background