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Issues list

Integrate output with spatialdata workflows
#111 opened May 22, 2025 by christophechu
[BUG] 'qv_column' is not defined
#110 opened May 12, 2025 by MIC0001
@EliHei2 @andrewmoorman
1
transcript assignment fails to match nuclei boundaries
#109 opened May 12, 2025 by xu-ziwei
2
[BUG] problem with saving cell masks adata
#107 opened May 6, 2025 by OneHitKO
@EliHei2 @andrewmoorman
3
Question about how segger construct the negative edge and how did segger use the prior segmentation
#104 opened Apr 24, 2025 by clwan
[BUG] NameError: name 'XeniumSample' is not defined
#98 opened Apr 12, 2025 by marzaidi
@EliHei2 @andrewmoorman
1
Low speed with 5k genes
#97 opened Mar 31, 2025 by mossishahi
@EliHei2 @andrewmoorman
5
runtimeError when training model from Xenium data
#95 opened Mar 25, 2025 by elo-nsrb
@EliHei2 @andrewmoorman
2
KeyError in DataLoader when (tx, belongs, bd).edge_label is missing for some samples
#94 opened Mar 24, 2025 by mossishahi
@EliHei2 @andrewmoorman
1
2D vs. 3D segementation
#93 opened Mar 22, 2025 by Zach-Sten
segger for StereoSeq
#91 opened Mar 5, 2025 by MargotCh
Updating Xenium explorer.
#87 opened Jan 30, 2025 by EliHei2
Xenium Explorer output
#82 opened Jan 14, 2025 by EliHei2
2
segger in COSMX data - data generation step enhancement New feature or request new feature
#74 opened Jan 7, 2025 by joaolsf
4
[Visualisation] Baysor-like output
#69 opened Nov 30, 2024 by jpark27
3
[BUG] ValueError while tuning parameters
#68 opened Nov 16, 2024 by marzaidi
2
seg2explorer arguments
#45 opened Oct 16, 2024 by quail768
4
spatialdata support in segger enhancement New feature or request
#20 opened Oct 4, 2024 by LucaMarconato
12 tasks
2
Produce cell mask polygons and connect to bento-tools for post-hoc geometrical assessment enhancement New feature or request new feature
#13 opened Sep 25, 2024 by EliHei2
1 of 3 tasks
@LucaMarconato @ckmah
@rukhovich @EliHei2
Early stopping for training enhancement New feature or request new feature
#12 opened Sep 24, 2024 by EliHei2
1 task
@EliHei2
1
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