Search results

igraph 1.0 release breaks some plotting tests

Area - Plotting 🌺

Area – ReproducibilityExact replicationExact replication

Status: Open.

Bug

#3865 In scverse/scanpy;

· scverse-bot opened on Nov 1, 2025

Highly Variable Genes Selection using CSC <code>dask</code>

Area - Out of core 💾Working with on disk dataWorking with on disk data

Area – Performance 🐌

Status: Open.

Enhancement

#3862 In scverse/scanpy;

· ilan-gold opened on Oct 30, 2025

· 

1.12.0

<code>sc.get.aggregate</code> with CSC dask

Area - Out of core 💾Working with on disk dataWorking with on disk data

Area – Performance 🐌

Status: Open.

Enhancement

#3861 In scverse/scanpy;

· ilan-gold opened on Oct 30, 2025

· 

1.12.0

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

Status: Open.

Bug

#3845 In scverse/scanpy;

· 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)

Triage 🩺This issue needs to be triaged by a maintainerThis issue needs to be triaged by a maintainer

Status: Open.

Enhancement

#3842 In scverse/scanpy;

· asmlgkj opened on Oct 21, 2025

Regressing out variables in pearson residual normalization (SCTransform)

Triage 🩺This issue needs to be triaged by a maintainerThis issue needs to be triaged by a maintainer

Status: Open.

Enhancement

#3838 In scverse/scanpy;

· Li-ZhiD opened on Oct 20, 2025

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

Needs info❔More information neededMore information needed

Status: Open.

Bug

#3837 In scverse/scanpy;

· zekepuli opened on Oct 17, 2025

spaceranger’s automated cluster number detection

Needs info❔More information neededMore information needed

Status: Open.

Enhancement

#3834 In scverse/scanpy;

· asmlgkj opened on Oct 14, 2025

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

Triage 🩺This issue needs to be triaged by a maintainerThis issue needs to be triaged by a maintainer

Status: Open.

Enhancement

#3828 In scverse/scanpy;

· jpintar opened on Oct 5, 2025

Export more types

Area – APIAPI designAPI design

Status: Open.

Enhancement

#3826 In scverse/scanpy;

· flying-sheep opened on Oct 2, 2025

Apple Silicon: Accelerate or openBLAS for Numpy

Question

Status: Open.

Enhancement

#3823 In scverse/scanpy;

· mxp0wr opened on Sep 30, 2025

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

Area – APIAPI designAPI design

Area – Differential ExpressionDifferential expressionDifferential expression

good first issueeasy first issue to get started in OSS community contribution!easy first issue to get started in OSS community contribution!

Status: Open.

Enhancement

#3822 In scverse/scanpy;

· ilan-gold opened on Sep 30, 2025