[add] Generate segmentation patches for faster ROI-based segmentation
Open
Nobody has claimed this yet.
enhancement
- Dominant language
- Python
- Stars
- 46
- Forks
- 23
- PR merge metrics
- No merged PRs in 30d
Description
Description of feature
SOPA implements patching to get focused segmentations. This needs to be implemented in spatialxe to have ROI-specific segmentation. This also would speed up cellpose/basyor/proseg steps and reduce the overall GPU vram usage
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by reading the SOPA API cell-segmentation documentation and inspecting spatialaxe's existing cellpose, basyo, and proseg processing entry points. Define how ROI-specific segmentation patches should flow through those steps, then verify that segmentation remains correct while reducing processed area and GPU VRAM usage.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- computer-vision
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Quiet
- Clarity
- Needs clarification
- Newbie friendliness
- 38/100