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#2578 · flying-sheep opened on Jul 28, 2023
3

Labels Milestones New issue

Use layer parameter to refer to obsm representations

#3846

· Siyutex opened

on Oct 23, 2025

Implementation of <code>sc.tl.score_genes</code> doesn't match reference

#3845

· MLubetzki opened

on Oct 23, 2025

Support values_to_plot in pl.rank_genes_groups_matrixplot and pl.rank_genes_groups_heatmap (parity with dotplot)

#3842

· asmlgkj opened

on Oct 21, 2025

Regressing out variables in pearson residual normalization (SCTransform)

#3838

· Li-ZhiD opened

on Oct 20, 2025

Batch Key not working with sc.pp.scrublet()

#3837

· zekepuli opened

on Oct 17, 2025

spaceranger’s automated cluster number detection

#3834

· asmlgkj opened

on Oct 14, 2025

Add <code>jaccard</code> as an additional <code>method</code> in <code>sc.pp.neighbors</code>

#3828

· jpintar opened

on Oct 5, 2025

Export more types

#3826

· flying-sheep opened

on Oct 2, 2025

Apple Silicon: Accelerate or openBLAS for Numpy

#3823

· mxp0wr opened

on Sep 30, 2025

Output numer of observations aggregated from <code>scanpy.get.aggregate</code>

Area – Differential Expression

good first issue

#3822

· ilan-gold opened

on Sep 30, 2025

Unexpected number of non-zero distances when running <code>sc.pp.neighbors</code> with <code>transformer="pynndescent"</code>

#3809

· jpintar opened

on Sep 21, 2025

Custom neighbor transformers with variable neighbor count <= k fail

#3806

· maltekuehl opened

on Sep 19, 2025