Adding format checking for sparse matrix in the function "read_v3_10x_h5"
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- Python
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Description
I note that the function "read_v3_10x_h5" regards user's input as csr_matrix by defsult. However, there are various sparse storage formats such as COO and CSC. I think it would be better to add some checking and support more storage formats like COO and CSC.
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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 in scanpy/readwrite.py at the read_v3_10x_h5 function and inspect how sparse input is currently treated as csr_matrix. Define the supported sparse storage formats and add format checking or support for COO and CSC, then verify that the function handles those formats as intended.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- data
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 38/100