scverse / scverse/fast-array-utils

Integrate into scanpy and anndata

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Dominant language
Python
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15
Forks
5
Avg merge
10h 33m
Merged PRs (30d)
9

Description

Current differences:

  • asarray uses to_dense internally for cs{cr}_{matrix,array}
  • asarray supports zarr (#2)
  • asarray operates on a protocol OutOfCoreDataset defined by a to_memory method instead of the concrete class BaseCompressedSparseDataset (#4)

sum/axis_sum

  • returns np.ndarrays even when passing in a cs{rc}_matrix

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Research direction

The issue names no files or tests. Start by locating asarray, sum, and axis_sum, then compare their behavior with the stated scanpy and anndata integration differences; done means the listed compatibility gaps are addressed and verified.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
bioinformatics
Issue type
Feature
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
35/100

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