Squidpy 1.3.0 (2023-06-16)

Features

Add squidpy.tl.var_by_distance() to calculate distances to anchor points and store results in a design matrix.
Add squidpy.pl.var_by_distance() to visualize variables such as gene expression by distance to an anchor point. @LLehner #591

Fix pandas inf squidpy.pl.ligrec(). @michalk8 #625
Remove column assignment to improve compatibility with new cell metadata. @cornhundred #648
Fix squidpy.pl.extract() on views. @michalk8 #663
Set coordinates’ index type to same as in :attr:anndata.AnnData.obs in squidpy.read.vizgen() and squidpy.read.visium(). @michalk8 #665
Update cell metadata index conversion. @djlee1 #679
Fix previously updated cell metadata index conversion. @dfhannum #692

Update pre-commits and unpin numba and numpy. @giovp #643
Add attr: option to squidpy.gr.spatial_autocorr() to select values from :attr:anndata.AnnData.obs or :attr:anndata.AnnData.obsm. @michalk8 #664, #672
Add percentile option to squidpy.gr.spatial_neighbors() to filter neighbor graph using percentile of distances threshold. @LLehner #690
Add spatialdata.SpatialData as possible input for graph functions. @LLehner #701

Fix CI badges and tox. @michalk8 #627
Changed tutorial directory structure. @LLehner #113
Updated the quality control tutorials for Vizgen, Xenium and Nanostring. @pakiessling #110
Improved example for squidpy.tl.var_by_distance() and squidpy.pl.var_by_distance(). @LLehner #115