AllenInstitute / AllenInstitute/cell_type_mapper
How to apply cell_type_mapper on Spinal cord
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- Dominant language
- Python
- Stars
- 55
- Forks
- 9
- PR merge metrics
- No merged PRs in 30d
Description
Hi,
I understand that the Cell Type Mapper was originally designed for brain cell type mapping. I'm interested in applying it to mouse spinal cord data and would appreciate your guidance on a few points:
Since cell type markers in the spinal cord may differ from those in the brain, would it be advisable to incorporate a spinal cord snRNA-seq or scRNA-seq reference dataset into the model?
If so, what would be the recommended approach for integrating a spinal cord reference study into the existing framework?
Any suggestions or guidance would be greatly appreciated. Thank you very much!
Best,
Jingyao
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
No files, tests, or entry points are named. Start by reviewing the existing Cell Type Mapper reference-data workflow and documentation, then determine whether a spinal cord reference can be integrated and what configuration or preprocessing it requires. Done means providing clear, project-specific guidance for applying the mapper to mouse spinal cord data.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Documentation
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Quiet
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100