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Commits on Apr 7, 2026

• docs(plotting): add inline plot example for `highest_expr_genes` (#4025)

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  haoyu-haoyu

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  flying-sheep

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• docs: add inline example plot to sc.pl.highly_variable_genes (#4032)

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  Ekin-Kahraman

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  flying-sheep

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• fix: copy connectivities before passing to umap-learn (#4031)

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  nbjustice

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  flying-sheep

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• feat: add `sparse_format='csr'` parameter to `read_10x_mtx` (#4017)

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  ernestprovo23

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  flying-sheep

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• ci: pre-commit autoupdate (#4033)

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Commits on Mar 31, 2026

• fix: use fast-array-utils’ threadsafe njit (#4015)

  flying-sheep

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• refactor: Move datasets to scverse AWS S3 urls (#4011)

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  Zethson

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  flying-sheep

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• ci: pre-commit autoupdate (#4020)

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Commits on Mar 30, 2026

• ci: bump codecov/codecov-action from 5 to 6 (#4018)

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  dependabot[bot]

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Commits on Mar 27, 2026

• feat: presets (#3653)

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  flying-sheep

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  ilan-gold

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Commits on Mar 24, 2026

• chore: remove some long-deprecated functions (#4010)

  flying-sheep

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Commits on Mar 23, 2026

• ci: pre-commit autoupdate (#4009)

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Commits on Mar 20, 2026

• feat: support np.random.Generator (#3983)

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Commits on Mar 17, 2026

• ci: pre-commit autoupdate (#4003)

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Commits on Mar 16, 2026

• chore(deps): bump dorny/paths-filter from 3 to 4 (#4002)

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  dependabot[bot]

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Commits on Mar 14, 2026

• fix: raise ValueError when combat batch has fewer than 2 cells (#3994)

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  LiudengZhang

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  flying-sheep

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Commits on Mar 13, 2026

• feat: add `layer` param to filter_rank_genes_groups (#3999)

  flying-sheep

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Commits on Mar 9, 2026

• ci: pre-commit autoupdate (#3996)

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Commits on Mar 3, 2026

• ci: pre-commit autoupdate (#3992)

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Commits on Feb 26, 2026

• docs: specify `sc.tl.score_genes` array type support (#3989)

  flying-sheep

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• docs: deduplicate louvain and leiden parameter docs (#3986)

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• chore!: remove old positional compat (#3984)

  flying-sheep

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• ci: circumvent hatch incompatibility (#3987)

  flying-sheep

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Commits on Feb 24, 2026

• ci: pre-commit autoupdate (#3985)

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  pre-commit-ci[bot]

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  flying-sheep

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Commits on Feb 17, 2026

• fix: handle all-zero genes in seurat_v3 (#3980)

  flying-sheep

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• style: unify import messages (#3979)

  flying-sheep

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Commits on Feb 16, 2026

• ci: pre-commit autoupdate (#3978)

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• chore: add in accessors to silence deprecation warnings (#3974)

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  ilan-gold

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  flying-sheep

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Commits on Feb 10, 2026

• fix: removed unecessary warning when a file name comprises multiple dots (#3924)

  nicolasrochette

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• ci: pyproject-fmt (#3964)

  flying-sheep

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Commits on Feb 9, 2026

• ci: fix anndata.test.helpers usage (#3968)

  flying-sheep

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Commits on Feb 6, 2026

• ci: fix and deduplicate rank_gene_groups tests (#3966)

  flying-sheep

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Commits on Jan 29, 2026

• ci: write zarr 3 format with supported anndata versions (#3959)

  flying-sheep

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Commits on Jan 27, 2026

• ci: pre-commit autoupdate (#3955)

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Commits on Jan 23, 2026

• docs: generate 1.12.0 release notes (#3951)

  flying-sheep

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