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35 Open 92 Closed
35 Open 92 Closed
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Issues list

No common gene when running Tangram in Sopa-CLI model
#174 opened Dec 31, 2024 by KunHHE
4
[Help wanted] --save-h5ad but missed transcript counts
#173 opened Dec 28, 2024 by KunHHE
1
[Bug] Sopa2 error when no cells are found in FOV
#169 opened Dec 22, 2024 by pakiessling
1
Using sopa as module in workflow leads to NameError: The name 'paths' is unknown in this context
#166 opened Dec 20, 2024 by bednarsky
1
[Feature] Sopa2 with BIDcell/segger
#165 opened Dec 18, 2024 by jpark27
4
reading .hdf5 file in sopa?
#163 opened Dec 13, 2024 by KunHHE
2
[help wanted] FileNotFoundError: [Errno 2] No such file or directory for --sopa resolve baysor
#161 opened Dec 3, 2024 by KunHHE
5
[Feature] Multiple run of Cellpose/Baysor
#154 opened Nov 19, 2024 by lguerard
6
Issue resolving conflicts with resolve() for Baysor segmentation
#152 opened Nov 8, 2024 by NJNataren
4
[Feature] Bypass Baysor patches where no cells
#150 opened Nov 4, 2024 by lguerard
4
Obtaining transcript confidence and assignment_confidence from baysor segmentation
#149 opened Nov 4, 2024 by pngai1
2
How to analyze one tissue section data separately from one capture area which include two tissue sections for Xenium 5k ?
#148 opened Nov 3, 2024 by lidd77
1
Min & Max aggregation methods enhancement New feature or request
#147 opened Nov 1, 2024 by dancelestini
4
[Bug] Parallelization backend issues with dask
#145 opened Oct 30, 2024 by quentinblampey
[Bug] Xenium Prime - empty codewords included in the SOPA output enhancement New feature or request
#144 opened Oct 25, 2024 by wlason
1
[Bug] Mistake in slurm config yaml
#141 opened Oct 22, 2024 by wlason
1
[Feature] Allow setting of run_name in sopa explorer write enhancement New feature or request
#139 opened Oct 16, 2024 by pakiessling
2
Unable to read a whole slide image into sopa
#137 opened Oct 8, 2024 by asmitaL99
8
[Bug] Polygon resolution after cellpose leads to overlapping and misshapen cells
#136 opened Oct 4, 2024 by pakiessling
1
[Feature] Assigning transcript (points) to cells
#132 opened Sep 29, 2024 by pakiessling
8
[Feature] Cell Boundary Expansion in DAPI Stained Fluorescence Images enhancement New feature or request
#130 opened Sep 26, 2024 by guoyang-github
4
[Bug] Isse with running Baysor segmentation on some but not all patches
#123 opened Sep 12, 2024 by marsdenl
20
Handling pseudo 3D information
#122 opened Sep 9, 2024 by Marius1311
3
[Feature & Bug] Xenium explorer displaying both Cellpose and Baysor boundaries
#120 opened Sep 7, 2024 by lguerard
6
[Bug]"Could not find element with name ['cell_circles']"
#117 opened Sep 2, 2024 by Yifan-debug
7
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