scverse / scverse/scverse-io

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Description

I propose one module per modality

  • scverse_io.transcriptomics
    • read_10x_h5
    • ...
  • scverse_io.airr
    • read_10x_vdj
  • scverse_io.atac
    • ...
  • scverse_io.multimodal
    • read_cellranger_multi
    • ...

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First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Start by reviewing the proposed module entry points: scverse_io.transcriptomics, scverse_io.airr, scverse_io.atac, and scverse_io.multimodal, including the listed readers such as read_10x_h5 and read_10x_vdj. Done means reaching agreement on and implementing a one-module-per-modality structure, including the multimodal readers.

Written by the indexing model from the issue text.

Assessment

Domain
bioinformatics
Issue type
Refactor
Difficulty
5/5
Estimated time
Over a week
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
25/100

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