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[BUG] Cellpose CLI uses CPU when --gpu_device mps is specified

bugSomething isn't workingSomething isn't working

Status: Open.

#1455 In MouseLand/cellpose;

· Kartoffelecke opened on May 17, 2026

[BUG] Filter button not correctly filtering image

bugSomething isn't workingSomething isn't working

Status: Open.

#1452 In MouseLand/cellpose;

· mrariden opened on May 13, 2026

No flows saved for 3D segmentation

enhancementNew feature or requestNew feature or request

Status: Open.

#1450 In MouseLand/cellpose;

· carmineceraolo opened on May 12, 2026

Document how to Retrain Model from Scratch if Technically Possible

enhancementNew feature or requestNew feature or request

Status: Open.

#1446 In MouseLand/cellpose;

· DarioS opened on May 6, 2026

[BUG] Mask expansion / inflated masks with Cellpose-SAM on single-channel microscopy images

bugSomething isn't workingSomething isn't working

Status: Open.

#1442 In MouseLand/cellpose;

· walkeraw2002 opened on May 1, 2026

[BUG] reproduce the finetune performance of cellpose-sam on PlantSeg

bugSomething isn't workingSomething isn't working

Status: Open.

#1437 In MouseLand/cellpose;

· UpChen opened on Apr 22, 2026

[BUG] CP3 incorrect UNet architecture when training with --all_channels

bugSomething isn't workingSomething isn't working

CP3Cellpose3 related issuesCellpose3 related issues

Status: Open.

#1427 In MouseLand/cellpose;

· neaamdawood opened on Apr 2, 2026

[FEATURE] Remote server support for Cellpose GUI inference, training, and annotation

enhancementNew feature or requestNew feature or request

Status: Open.

#1424 In MouseLand/cellpose;

· bobqianic opened on Mar 31, 2026

[FEATURE] Speed-up for multiple ROI deletion

enhancementNew feature or requestNew feature or request

Status: Open.

#1419 In MouseLand/cellpose;

· chenyenchung opened on Mar 24, 2026

[BUG] Cellpose-3D produces inferior results for specific datasets

bugSomething isn't workingSomething isn't working

Status: Open.

#1389 In MouseLand/cellpose;

· postnubilaphoebus opened on Jan 5, 2026

[BUG] Square-shaped artifacts in Cellpose flow

bugSomething isn't workingSomething isn't working

Status: Open.

#1384 In MouseLand/cellpose;

· thewoz opened on Dec 18, 2025

[BUG] Mask values exceed 65535 when metric_intersection_over_union()

bugSomething isn't workingSomething isn't working

Status: Open.

#1378 In MouseLand/cellpose;

· Chenchao-is-CC opened on Dec 6, 2025