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Release/v2 stable - #13

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EliHei2 wants to merge 31 commits into

mainfrom

release/v2-stable

Closed

Release/v2 stable#13
EliHei2 wants to merge 31 commits into
mainfrom
release/v2-stable

Commits on Feb 2, 2026
- Add alignment loss integration and comprehensive test suite
  
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  claude
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  417bf65
- docs: add install tips and deps
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  14d4733
- feat: add spatialdata IO/export, datasets, and docs
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  57925c0
- fix: align prediction graph scale factor
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  c69010d
- docs: add release note and CLI params
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- Add ME debug output and quiet warnings
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  e674913
- Wire ME params and silence predict warnings
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  76e5439
- Auto-normalize scRNA reference for ME genes
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  b480bb4
- Cache ME gene discovery results
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  3e5cadb
- Add ME discovery progress messages
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  d06a355
- Stabilize alignment loss with balancing and fixed weights
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  139f2cd
- Refine alignment loss with contrastive same-gene positives
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  2e21a8c
- Update alignment loss docs and comments
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  aa3ea93
- Subsample alignment positives to reduce imbalance
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  dbb0c10
- Adjust ME gene defaults for more pairs and stricter exclusivity
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  1ae1102
- Document ME discovery defaults
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  49c805e
Commits on Feb 3, 2026
- Subsample scRNA cells per type for faster ME discovery
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  8666750
- Lazy-load data utils to reduce import overhead
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  0b9b825
- Match main branch import strategy for data utils
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  3ce6800
- Lazy-load optional modules and update docs
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  851a6a2
- Add AnnData output and embed table in SpatialData
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  84186eb
Commits on Feb 4, 2026
- Speed up Delaunay boundaries and add parallel option
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  1cb60bd
- Improve Xenium Explorer export polygons and metadata
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  6c5c714
- Unify worker count across CLI steps
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  b56441a
Commits on Feb 5, 2026
- Update CLI help for format and export options
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  312ad6f
- Stop tracking CLAUDE.md
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  210719f
- Add spatialdata-io extra and enforce RAPIDS checks
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  93f145d
Commits on Feb 12, 2026
- chore: prepare v2 stable release updates
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  77f2f52
- Prepare v0.2.0 release updates
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  2c92b43
Commits on Feb 13, 2026
- docs: expand v0.2.0 release documentation
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  1b862d8
- docs: align v0.2.0 technical summary across markdown
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  committed
  9ee0536

Commits

Commits on Feb 2, 2026

Commits on Feb 3, 2026

Commits on Feb 4, 2026

Commits on Feb 5, 2026

Commits on Feb 12, 2026

Commits on Feb 13, 2026