Investigate Array API usage in scanpy codebase
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- Dominant language
- Python
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Description
What kind of feature would you like to request?
Additional function parameters / changed functionality / changed defaults?
Please describe your wishes
The array api is somewhat mature to the point of being using in scipy for interoperability between dense CPU/GPU functions (see https://docs.scipy.org/doc/scipy/dev/api-dev/array_api.html). It is coming with the new sparse format that may come into existence: https://github.com/pydata/sparse/discussions/618
So it would be good to start experimenting with this in scanpy
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
The issue names no Scanpy files, tests, or entry points. Start by surveying the codebase for array operations and review the linked SciPy Array API guidance and pydata/sparse discussion. Define a focused experiment and its supported operations, then document the results and tests needed to show the chosen functionality works.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100