scverse

scverse/anndata

Annotated data.

755 stars 200 forks 755 watchers Python BSD 3-Clause "New" or "Revised" License
anndata bioinformatics data-science machine-learning scanpy scverse transcriptomics
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6 Open Issues Need Help Last updated: Jul 2, 2026

Open Issues Need Help

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feat: sensible chunk defaults for dask 1 day ago
performance 🐌 good first issue type: dask array
scverse/anndata
755

Annotated data.

Python
#anndata#bioinformatics#data-science#machine-learning#scanpy#scverse#transcriptomics
`obs` i.e., `axis=0` column joining + `anndata.concat` is underspecified 2 months ago
good first issue topic: api type: dataframe 🧮
scverse/anndata
755

Annotated data.

Python
#anndata#bioinformatics#data-science#machine-learning#scanpy#scverse#transcriptomics
storing dict in .h5ad should raise warning when keys include '/' 5 months ago
good first issue stale
scverse/anndata
755

Annotated data.

Python
#anndata#bioinformatics#data-science#machine-learning#scanpy#scverse#transcriptomics
Downcast `indices` for sparse matrices if possible on-disk 5 months ago
performance 🐌 good first issue topic: io type: sparse 🫥
scverse/anndata
755

Annotated data.

Python
#anndata#bioinformatics#data-science#machine-learning#scanpy#scverse#transcriptomics
Setting adata.filename = None doesn't load .X to memory 8 months ago
good first issue topic: backed pinned
scverse/anndata
755

Annotated data.

Python
#anndata#bioinformatics#data-science#machine-learning#scanpy#scverse#transcriptomics
No Write Method for `DaskArrayView` 11 months ago
good first issue Bug 🐛
scverse/anndata
755

Annotated data.

Python
#anndata#bioinformatics#data-science#machine-learning#scanpy#scverse#transcriptomics