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[Bug] Can't run Visium HD trough snakemake

Status: Open.

Bug

#415 In prism-oncology/sopa;

· quentinblampey opened on Apr 17, 2026

Custom Segmentation Error

Status: Open.

#407 In prism-oncology/sopa;

· hallumg opened on Apr 2, 2026

[Bug] sopa.segmentation.cellpose falls back to CPU despite gpu=True and valid torch.cuda context

Status: Open.

Bug

#382 In prism-oncology/sopa;

· rushilp7 opened on Feb 1, 2026

[Bug] Xenium explorer conversion for large PhenoCycler image

Status: Open.

Bug

#378 In prism-oncology/sopa;

· Rayan21100 opened on Jan 13, 2026

VisiumHD: Stardist+proseg for mask checking

Status: Open.

#375 In prism-oncology/sopa;

· KunHHE opened on Jan 6, 2026

[Feature Request] Integration of FlashDeconv for GPU-free, atlas-scale spatial deconvolution

Status: Open.

#374 In prism-oncology/sopa;

· cafferychen777 opened on Jan 2, 2026

segmentation combine between two spatialdata objects

Status: Open.

#369 In prism-oncology/sopa;

· PietroD opened on Dec 16, 2025

[Feature] Add numpy array mask from external tool to sopa's spatialdata

Status: Open.

#361 In prism-oncology/sopa;

· PietroD opened on Dec 2, 2025

Issue CosMx reader and polygons

Status: Open.

#357 In prism-oncology/sopa;

· ccruizm opened on Nov 21, 2025

[Feature] Experiment different filtering parameters during aggregation

Status: Open.

#355 In prism-oncology/sopa;

· quentinblampey opened on Nov 14, 2025

[Feature] Singular g4x support

Status: Open.

#339 In prism-oncology/sopa;

· derrik-gratz opened on Oct 20, 2025

Can sopa take as input COMET data ?

Status: Open.

#331 In prism-oncology/sopa;

· reJELIN opened on Oct 6, 2025