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fix: README for dask + zulip

Status: Merged (completed).

scverse/scanpynumber 3854

#3854 In scverse/scanpy;

· by ilan-gold was closed on Oct 30, 2025

fix: scanpy benchmark uses pip for igraph + setup_cache

benchmark

Status: Merged (completed).

scverse/scanpynumber 3853

#3853 In scverse/scanpy;

· by ilan-gold was closed on Oct 30, 2025

fix: dotplot scaling with swapped axes

Status: Merged (completed).

scverse/scanpynumber 3851

#3851 In scverse/scanpy;

· by ilan-gold was closed on Oct 30, 2025

chore: use uv runable code sample for bug reports

Status: Merged (completed).

scverse/scanpynumber 3852

#3852 In scverse/scanpy;

· by ilan-gold was closed on Oct 30, 2025

fix: various DPT plot fixes

Status: Merged (completed).

scverse/scanpynumber 3864

#3864 In scverse/scanpy;

· by flying-sheep was closed on Nov 3, 2025

Backport PR #3864 on branch 1.11.x (fix: various DPT plot fixes)

Status: Merged (completed).

scverse/scanpynumber 3869

#3869 In scverse/scanpy;

· by flying-sheep was closed on Nov 3, 2025

Backport PR #3802 on branch 1.11.x (docs: fix sc.filter_cells return documentation typo)

Status: Merged (completed).

scverse/scanpynumber 3804

#3804 In scverse/scanpy;

· by meeseeksmachine was closed on Oct 31, 2025

Backport PR #3851 on branch 1.11.x (fix: dotplot scaling with swapped axes)

Status: Merged (completed).

scverse/scanpynumber 3856

#3856 In scverse/scanpy;

· by meeseeksmachine was closed on Oct 31, 2025

ci: adapt tests to igraph 1.0

Still Needs Manual Backport

Status: Merged (completed).

scverse/scanpynumber 3868

#3868 In scverse/scanpy;

· by flying-sheep was closed on Nov 3, 2025

docs: fix sc.filter_cells return documentation typo

Status: Merged (completed).

scverse/scanpynumber 3802

#3802 In scverse/scanpy;

· by maltekuehl was closed on Sep 18, 2025

fix: handle as_sparse_dask_array no longer exported from anndata

Status: Merged (completed).

scverse/scanpynumber 3881

#3881 In scverse/scanpy;

· by ilan-gold was closed on Nov 7, 2025

Backport PR #3844 on branch 1.11.x (docs: fix score_genes citation)

Status: Merged (completed).

scverse/scanpynumber 3850

#3850 In scverse/scanpy;

· by meeseeksmachine was closed on Oct 28, 2025

Backport PR #3847 on branch 1.11.x (ci: bump actions/upload-artifact from 4 to 5)

dependenciesPull requests that update a dependency filePull requests that update a dependency file

github_actionsPull requests that update GitHub Actions codePull requests that update GitHub Actions code

Status: Merged (completed).

scverse/scanpynumber 3848

#3848 In scverse/scanpy;

· by meeseeksmachine was closed on Oct 27, 2025

docs: fix score_genes citation

Status: Merged (completed).

scverse/scanpynumber 3844

#3844 In scverse/scanpy;

· by MLubetzki was closed on Oct 28, 2025

Backport PR #3771 on branch 1.11.x (fix: Ignore NaNs when calculating scatter plot dot size)

Area - Plotting 🌺

Status: Merged (completed).

scverse/scanpynumber 3858

#3858 In scverse/scanpy;

· by meeseeksmachine was closed on Oct 30, 2025

fix: Ignore NaNs when calculating scatter plot dot size

Area - Plotting 🌺

Status: Merged (completed).

scverse/scanpynumber 3771

#3771 In scverse/scanpy;

· by MLubetzki was closed on Oct 30, 2025

Backport PR #3854 on branch 1.11.x (fix: README for dask + zulip)

Status: Merged (completed).

scverse/scanpynumber 3857

#3857 In scverse/scanpy;

· by meeseeksmachine was closed on Oct 30, 2025

Backport PR #3852 on branch 1.11.x (chore: use uv runable code sample for bug reports)

Status: Merged (completed).

scverse/scanpynumber 3855

#3855 In scverse/scanpy;

· by meeseeksmachine was closed on Oct 30, 2025

ci: bump actions/upload-artifact from 4 to 5

dependenciesPull requests that update a dependency filePull requests that update a dependency file

github_actionsPull requests that update GitHub Actions codePull requests that update GitHub Actions code

Status: Merged (completed).

scverse/scanpynumber 3847

#3847 In scverse/scanpy;

· by dependabot was closed on Oct 27, 2025

irrelevant warning in sc.read

Status: Closed (completed).

#2288 In scverse/scanpy;

· by yotamcons was closed on May 28, 2025

Dotplot scaling with swapped axes

Area - Plotting 🌺

Needs info❔More information neededMore information needed

Status: Closed (completed).

Bug

#3708 In scverse/scanpy;

· by WeilerP was closed on Oct 30, 2025