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Pull requests: scverse/squidpy

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Pull requests list

refactor: restructure the api docs (4/4)
#1287 opened Sep 3, 2026 by selmanozleyen Member • 4/4 • Draft
chore: replace two enums with literals (3/4)
#1286 opened Sep 3, 2026 by selmanozleyen Member • 3/4 • Draft
1
Incorporating feedback on niche refactor
#1284 opened Sep 1, 2026 by shashkat Contributor • Draft
1
1
[pre-commit.ci] pre-commit autoupdate
#1283 opened Aug 31, 2026 by pre-commit-ci Bot Loading…
chore(deps): bump the actions-deps group across 1 directory with 7 updates dependencies Pull requests that update a dependency file github_actions Pull requests that update GitHub Actions code
#1282 opened Aug 31, 2026 by dependabot Bot Loading…
refactor: add StainReference transform methods (2/4)
#1280 opened Aug 28, 2026 by selmanozleyen Member • 2/4 • Draft
1
refactor: convert experimental parameters to TypedDicts (1/4)
#1279 opened Aug 28, 2026 by selmanozleyen Member • 1/4 • Draft
4
feat: automatic K selection (CellCharter's ClusterAutoK)
#1276 opened Aug 22, 2026 by selmanozleyen Member • Draft
1
9
Emergent-seam cut-cell detection for calculate_tiling_qc (dense tissue / wide gaps / single-sided cuts)
#1255 opened Aug 6, 2026 by timtreis Member Loading…
1
Multi-slide pooled fit_stain_reference
#1209 opened Jun 14, 2026 by timtreis Member Loading…
@timtreis
9
feat: stalign api and landmark alignment release-added
#1195 opened Jun 1, 2026 by selmanozleyen Member Loading…
@selmanozleyen
19
Add spatialdata-plot delegation backend (gated by feature flag)
#1173 opened May 12, 2026 by timtreis Member • Draft
@timtreis
1
Draft: add contour-based ring density and smooth signed-distance density for SpatialData
#1163 opened Apr 16, 2026 by hutaobo • Draft
1
4
Feat/gene imputation
#1161 opened Apr 16, 2026 by MDLDan Contributor • Draft
2
Add pluggable backend dispatch system
#1151 opened Apr 7, 2026 by Intron7 Member • Draft
16
Improved sliding windows
#1116 opened Feb 10, 2026 by schrf Loading…
1
@selmanozleyen
12
Add new spatial graph features and tests (closes #901)
#1091 opened Jan 3, 2026 by luckyy14 Loading…
1
Add Pytest Benchmarks Feature pytest-benchmark
#1070 opened Dec 1, 2025 by selmanozleyen Member • Draft
1
Use the correct image for scatter plots with alternate spatial bases
#1032 opened Sep 8, 2025 by obriencshl Loading…
5
Add COZI to nhood_enrichment()
#1023 opened Aug 12, 2025 by chiarasch Loading…
1 task done
@selmanozleyen
7
Adding Benchmarks benchmark enhancement ✨ New feature or request
#1016 opened Jul 10, 2025 by selmanozleyen Member Loading…
@flying-sheep @selmanozleyen
5
sq.pp.filter_cells for SpatialData
#1011 opened Jun 18, 2025 by selmanozleyen Member Loading…
1 task done
1
1
Add filter function that subsets the entire object
#967 opened Mar 4, 2025 by timtreis Member • Draft
1
@selmanozleyen
1
Add method to calculate embeddings for variable by distance aggregation feature PR introduces a new feature squidpy2.0 Everything releated to a Squidpy 2.0 release
#807 opened Mar 4, 2024 by LLehner Member Loading…
2 tasks
4
fix the bug of relative coordinates
#572 opened Jun 17, 2022 by JiaShun-Xiao Loading…
8
ProTip! Exclude everything labeled bug with -label:bug.