Add the Morisita-Horn index for repertoire overlap similarity scores
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Description
Hi there,
I've recently started using scirpy for TCR analyses. For the repertoire overlap, the scipy distances are the only available scores it seems (with Jaccard being the default one).
Do you think it would be possible to also integrate the Morisita-Horn similarity index, as it seems to be the standard measure used in most publications?
Best,
Nicolas
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 locating the repertoire-overlap scoring code and the existing scipy distance integration, then review how Jaccard is exposed and tested. The work is complete when Morisita-Horn is available as an additional overlap similarity score with coverage matching the existing scoring options.
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Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100