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Samuel Gunz

@samuelgunz.bsky.social
195 followers 459 following 13 posts

PhD student in Statistical Bioinformatics at the University of Zurich and the Swiss Institue of Bioinformatics

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Reposted by Samuel Gunz
Mark Robinson @markrobinsonca.bsky.social · 24/08/2026
That's exciting. From a hackathon in December 2023 (spatialhackathon.github.io/past.html) to a preprint in June 2025 (www.biorxiv.org/content/10.1...) to this publication out today (doi.org/10.1038/s415...).
spatialhackathon.github.io
Past Events
Github Pages for SpatialHackathon
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Reposted by Samuel Gunz
Mark Robinson @markrobinsonca.bsky.social · 06/05/2026
This was a fun effort from our lab retreat (!) to recreate a "arms-length" benchmark (i.e., one that someone else created) using our Omnibenchmark framework. We all learned a lot in the process ..
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Reposted by Samuel Gunz
Martin Emons @martinemons.bsky.social · 16/04/2026
We are excited to share our latest preprint on spatialFDA, a method for the statistical analysis of spatial omics data. bioconductor.org/packages/3.2...
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Reposted by Samuel Gunz
Helena Lucia Crowell @helucro.bsky.social · 21/11/2025
Many people hours, calls and messages later: OSTA is now “in (pre)print”, though the real thing lives at bioconductor.org/books/OSTA. Check it out, get in touch. We welcome any feedback, suggestions, wishes (& contributions). It’s been a joy working with you @estellayixingdong.bsky.social!
bioconductor.org
Orchestrating Spatial Transcriptomics Analysis with Bioconductor
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Reposted by Samuel Gunz
bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 21/11/2025
Orchestrating Spatial Transcriptomics Analysis with Bioconductor www.biorxiv.org/content/10.1101/202…
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Samuel Gunz @samuelgunz.bsky.social · 14/10/2025
I'm very excited to share our latest preprint! We introduce structure-based analysis of spatial omics data – an approach that focuses on multi-cellular anatomical structures rather than single cells. We also present sosta to facilitate this type of analysis: bioconductor.org/packages/sos...
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Reposted by Samuel Gunz
Anna Pascual Reguant @pascual-reguant.bsky.social · 15/09/2025
🚀 Spatial Transcriptomics (Imaging) + Spatial-centric analyses by @helucro.bsky.social : the way to truly interrogate tissues!!! 📖 Read our pre-print on human tonsil architecture (full of tonsiLove ♥️) here: doi.org/10.1101/2025...
doi.org
A transcriptional map of human tonsil architecture: beyond the sum of (single cell) parts
The tonsil is a highly compartmentalized organ in which different microanatomical structures orchestrate designated (immune) functions. We use this already well-studied tissue to survey spatial molecu...
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Reposted by Samuel Gunz
Martin Emons @martinemons.bsky.social · 11/09/2025
We are excited to share the publication of our paper on exploratory spatial statistics for spatial omics data academic.oup.com/nar/article/...
academic.oup.com
Harnessing the potential of spatial statistics for spatial omics data with pasta
Abstract. Spatial omics allow for the molecular characterization of cells in their spatial context. Notably, the two main technological streams, imaging-ba
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Reposted by Samuel Gunz
Martin Emons @martinemons.bsky.social · 27/06/2025
Update: We greatly revised our paper and renamed it “Harnessing the Potential of Spatial Statistics for Spatial Omics Data with pasta”. We discuss the broad range of exploratory spatial statistics options for spatial Omics technologies and show relevant use cases. arxiv.org/abs/2412.01561
arxiv.org
Harnessing the Potential of Spatial Statistics for Spatial Omics Data with pasta
Spatial omics assays allow for the molecular characterisation of cells in their spatial context. Notably, the two main technological streams, imaging-based and high-throughput sequencing-based, can gi...
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Samuel Gunz @samuelgunz.bsky.social · 04/12/2024
Interested in spatial statistics for spatial omics data? Check out our new resource: pasta. We show how different technologies lead to different data modalities give and overview of point-pattern and lattice-based spatial analysis. Feedback welcome! arxiv.org/abs/2412.01561
arxiv.org
pasta: Pattern Analysis for Spatial Omics Data
Spatial omics assays allow for the molecular characterisation of cells in their spatial context. Notably, the two main technological streams, imaging-based and high-throughput sequencing-based, can gi...
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