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Check stability of adata and csv outputs on runners

Status: Open.

#126 In nf-core/molkart;

· FloWuenne opened on Oct 26, 2025

Ensure stable outputs if Mindagap is skipped

bugSomething isn't workingSomething isn't working

Status: Open.

#122 In nf-core/molkart;

· kbestak opened on Jul 27, 2025

·  

1.2.0 - Cartography Castle

Update Cellpose to 3.1.0_cv

Status: Open.

Enhancement

#114 In nf-core/molkart;

· FloWuenne opened on Apr 1, 2025

·  

1.2.0 - Cartography Castle

Add GPU profile

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#89 In nf-core/molkart;

· kbestak opened on Oct 28, 2024

Segmentation with Segger

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#87 In nf-core/molkart;

· kbestak opened on Oct 26, 2024

Segmentation with Proseg

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#85 In nf-core/molkart;

· kbestak opened on Oct 25, 2024

Add nf-tests for all modules, including local ones

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#77 In nf-core/molkart;

· kbestak opened on Sep 10, 2024

·  

1.3.0 - Multiplexed Meadows

Optimize parameters for full test data

Status: Open.

#73 In nf-core/molkart;

· kbestak opened on Jun 18, 2024

·  

1.2.0 - Cartography Castle

Issue: Unable to run Ilastik with different image sizes.

bugSomething isn't workingSomething isn't working

Status: Open.

#69 In nf-core/molkart;

· giacuong171 opened on Jun 3, 2024

Benchmark & Improve Cellpose performance

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#67 In nf-core/molkart;

· FloWuenne opened on May 16, 2024