@elihei.bsky.social
📤 29
📥 23
📝 1
Beautiful work from
@steglelab.bsky.social
and
@danaivagiaki.bsky.social
!
add a skeleton here at some point
16 days ago
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reposted by
12 months ago
From great collaborations come great things. Excited to share Segger, the solution to segmentation of spatial transcriptomics (ST) data, with the
@steglelab.bsky.social
and
@moritzgerstung.bsky.social
labs, spearheaded by the great Andrew Moorman and Elyas Heidari
www.biorxiv.org/content/10.1...
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Segger: Fast and accurate cell segmentation of imaging-based spatial transcriptomics data
The accurate assignment of transcripts to their cells of origin remains the Achilles heel of imaging-based spatial transcriptomics, despite being critical for nearly all downstream analyses. Current c...
https://www.biorxiv.org/content/10.1101/2025.03.14.643160v1
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reposted by
Stegle Lab
12 months ago
1/ New preprint! 🍳
@elihei.bsky.social
and our team at
@embl.org
,
@dkfz.bsky.social
, and
@mskcancercenter.bsky.social
built
#segger
- a fast, accurate cell segmentation tool for spatial transcriptomics that assigns transcripts to their cell origins!
doi.org/10.1101/2025...
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reposted by
Nav
12 months ago
Accurate cell segmentation remains a major issue for spatial transcriptomics. Elyas Heidari and colleagues from the Gerstung, Pe'er and Stegle Labs released Segger, a new algorithm that uses GNN to model both transcripts and cells. More details in their preprint:
www.biorxiv.org/content/10.1...
loading . . .
Segger: Fast and accurate cell segmentation of imaging-based spatial transcriptomics data
The accurate assignment of transcripts to their cells of origin remains the Achilles heel of imaging-based spatial transcriptomics, despite being critical for nearly all downstream analyses. Current c...
https://www.biorxiv.org/content/10.1101/2025.03.14.643160v1
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10
3
reposted by
Moritz Gerstung
12 months ago
Spatial transcriptomics holds great promise to understand biological tissue function, but the assignment of transcripts to cells has been a substantial bottleneck. For this reason, Elyas Heidari, a student in my lab and in
@steglelab.bsky.social
built segger.
www.biorxiv.org/content/10.1...
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