AllenCell/napari-allencell-segmenter

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A plugin that enables image segmentation provided by Allen Institute for Cell Science

Stars: 20
Forks: 8
Open beginner issues: 0
Indexed issues: 18

Dominant language: Python
License: BSD-3-Clause
Last GitHub push: Nov 7, 2025
Latest indexed: Sep 13, 2026
Contributing guide: Contributing guide
Code of conduct: Code of conduct
Beginner labels: No beginner labels indexed
PR merge metrics: No merged PRs in 30d

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18 open issues indexed

Installation how-to video Open

documentation needs grooming

AllenCell/napari-allencell-segmenter#55 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Refactor pass 1 Open

engine enhancement segmenter UI

AllenCell/napari-allencell-segmenter#68 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Batch processing - Include workflow file in log file Open

engine enhancement

AllenCell/napari-allencell-segmenter#100 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Workflow editor compatibility with reader plugins Open

engine enhancement needs grooming UI

AllenCell/napari-allencell-segmenter#106 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Can't save selected layer Open

bug

AllenCell/napari-allencell-segmenter#124 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Custom workflows Open

engine enhancement needs grooming segmenter UI

AllenCell/napari-allencell-segmenter#127 · 3 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
output segmented result as Labels layer Open

engine enhancement

AllenCell/napari-allencell-segmenter#132 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Advanced display settings for workflow steps Open

AllenCell/napari-allencell-segmenter#144 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Determine / document which systems we intend to support training / executing models on Open

AllenCell/napari-allencell-segmenter#154 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Register new pypi project for ml plugin Open

AllenCell/napari-allencell-segmenter#155 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Cannot install napari-allencell-segmenter through napari menu Open

bug

AllenCell/napari-allencell-segmenter#156 · 6 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Cannot install through the plugin menu Open

bug

AllenCell/napari-allencell-segmenter#157 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Change publish workflow to use trusted publishing Open

AllenCell/napari-allencell-segmenter#160 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Pytests do not run Open

AllenCell/napari-allencell-segmenter#161 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Add developer documentation Open

AllenCell/napari-allencell-segmenter#162 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Fix failing segmentation workflows Open

AllenCell/napari-allencell-segmenter#163 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Error Saving Workflow Open

bug

AllenCell/napari-allencell-segmenter#165 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Print centroids of ROIs Open

bug

AllenCell/napari-allencell-segmenter#166 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026

AllenCell/napari-allencell-segmenter

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