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sc.pl.paga raises TypeError when cax is passed with multiple colors

Status: Open.

#4318 In scverse/scanpy;

· AdvaitS opened on Aug 22, 2026

Have use_rep accept anndata.acc acessors

Area – APIAPI designAPI design

Status: Open.

Enhancement

#4314 In scverse/scanpy;

· flying-sheep opened on Aug 21, 2026

·  

1.13.0

Use scverse-misc for dataset downloading

Status: Open.

Task

#4309 In scverse/scanpy;

· flying-sheep opened on Aug 21, 2026

Split up rank_genes_groups

Status: Open.

Enhancement

#4305 In scverse/scanpy;

· Intron7 opened on Aug 18, 2026

Adopt scanpy.pp.bbknn

Area – Preprocessing 🧼

Status: Open.

Enhancement

#4302 In scverse/scanpy;

· flying-sheep opened on Aug 18, 2026

·  

1.13.0

deprecate sc.external

Area – ExternalDealing with external toolsDealing with external tools

Status: Open.

Enhancement

#4295 In scverse/scanpy;

· flying-sheep opened on Aug 14, 2026

·  

1.13.0

Pre 2.0 janitor work

Area - Documentation 📒

Area – Performance 🐌

Area – Preprocessing 🧼

Status: Open.

Task

#4286 In scverse/scanpy;

· Zethson opened on Aug 10, 2026

log1p warning when modifying several layers

Status: Open.

#4285 In scverse/scanpy;

· gjhuizing opened on Aug 7, 2026

pp.regress_out returns wrong residuals when a covariate barely varies

Status: Open.

Bug

#4280 In scverse/scanpy;

· selmanozleyen opened on Aug 5, 2026

Investigate our neighbors algorithm choice

Area - Topology 🍩Neighbor graphsNeighbor graphs

Status: Open.

Enhancement

#4131 In scverse/scanpy;

· ilan-gold opened on May 19, 2026

·  

2.0.0

wilcoxon DE, vs_all_perturbed

Status: Open.

Enhancement

#4114 In scverse/scanpy;

· zboldyga opened on May 8, 2026

Investigate networkit (for leiden implementation)

Status: Open.

Enhancement

#4110 In scverse/scanpy;

· ilan-gold opened on May 7, 2026