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K-Lean: machine-verified contracts for spatial transcriptomics analysis

Status: Open.

#1215 In scverse/squidpy;

· Heime-Jorgen opened on Jun 15, 2026

Integration Testing CI Test Failure on python 3.14

Status: Open.

#1210 In scverse/squidpy;

· scverse-issue-creator opened on Jun 15, 2026

Integration Testing CI Test Failure on python 3.12

Status: Open.

#1206 In scverse/squidpy;

· scverse-issue-creator opened on Jun 13, 2026

Confusion about the correct formulation and interpretation of the co_occurrence calculation method in gr.co_occurrence

Status: Open.

#1205 In scverse/squidpy;

· HXD3D0323 opened on Jun 9, 2026

pl.ligrec does not match pvaule table output

Status: Open.

#1201 In scverse/squidpy;

· LukasNbio opened on Jun 4, 2026

speed up _resolve_data in spatial neighbors when working with spatialdata

Status: Open.

#1199 In scverse/squidpy;

· grst opened on Jun 3, 2026

Refactor gr.calculate_niche into separate functions

Status: Open.

#1192 In scverse/squidpy;

· grst opened on May 29, 2026

sq.gr.spatial_autocorr(mode="geary") uses the Moran's I variance formula for its analytic p-value

Status: Open.

#1183 In scverse/squidpy;

· franciscouzo opened on May 19, 2026

Public api change: rename adata to data and make it positional only

Status: Open.

#1180 In scverse/squidpy;

· selmanozleyen opened on May 15, 2026

spatial_neighbour_x should have serializable internals to avoid uns formats

Status: Open.

#1174 In scverse/squidpy;

· selmanozleyen opened on May 12, 2026

Niche analysis API not visible on squidpy website

Status: Open.

#1169 In scverse/squidpy;

· shashkat opened on May 8, 2026

Integration Testing CI Test Failure on python 3.14 with prerelease dependencies

Status: Open.

#1166 In scverse/squidpy;

· scverse-issue-creator opened on May 1, 2026