AllenCell / AllenCell/allencell-segmenter-ml

Patch size grid artifact in segmentation mask output

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#541 0 comments 0 reactions 0 assignees View on GitHub
needs prioritization Requests
Dominant language
Python
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5
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3
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No merged PRs in 30d

Description

Megaseg model patch size edges not being blended so grid artifacts present in output masks.

**How important is this feature to you? (Software team will re-prioritize all tickets based on current workload)**
high priority bug since it introduces artifacts in structure segmentation mask.

**Describe the solution you'd like**
Easiest thing would be to make a checkbox to set the patch size to the whole fov xyz dims so these artifacts go away. Could also work on optimizing the fusing/blending of edge overlap areas so that output segmentation masks don't have these artifacts.

**Additional context**
Add any other context or screenshots about the feature request here.
![image](https://github.com/user-attachments/assets/e40e83df-92c8-4cfd-a6e7-0bb206f77d20)

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