AllenInstitute / AllenInstitute/spatial_compare
add QC using morphology images and/or transcript coordinates
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Description
There may be additional QC features that can be learned from other raw data, i.e. from morphology.ome.tif or morphology_focus/, or from transcript z-coordinates.
- Ingest some of this data (using SpatialData, for example)
- Learn some informative features
- Add it to QC pipeline
Contributor guide
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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 examining the available morphology.ome.tif, morphology_focus/, and transcript z-coordinate data, then review SpatialData as a possible ingestion route. Define which raw-data features are informative and how they fit the QC pipeline; done means those features are ingested, learned, and included in QC.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100