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Allow using reference model without base adata #96

Merged
merged 19 commits into from
Sep 18, 2024
Merged

Allow using reference model without base adata #96

merged 19 commits into from
Sep 18, 2024

Commits on Sep 17, 2024

  1. Update channel structure

    @nictru
    nictru committed Sep 17, 2024
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  2. Change variable name in reference mapping

    @nictru
    nictru committed Sep 17, 2024
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Commits on Sep 18, 2024

  1. Improve channel structure

    @nictru
    nictru committed Sep 18, 2024
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  2. Change scvi and scanvi python scripts to support reference models

    @nictru
    nictru committed Sep 18, 2024
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  3. Implement embedding merging

    @nictru
    nictru committed Sep 18, 2024
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  4. Fix some syntax problems

    @nictru
    nictru committed Sep 18, 2024
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  5. Fix a very small bug

    @nictru
    nictru committed Sep 18, 2024
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  6. Fix problem with scanvi without scvi

    @nictru
    nictru committed Sep 18, 2024
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  7. Some more scvi and scanvi bug fixes

    @nictru
    nictru committed Sep 18, 2024
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  8. Remove traces of old reference mapping implementation

    @nictru
    nictru committed Sep 18, 2024
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  9. Change reference model handling

    @nictru
    nictru committed Sep 18, 2024
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  10. Fix scvi output definition bug

    @nictru
    nictru committed Sep 18, 2024
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  11. Fix channel structure bug

    @nictru
    nictru committed Sep 18, 2024
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  12. Fix merge_embeddings file name collision

    @nictru
    nictru committed Sep 18, 2024
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  13. Add merge_embeddings to outdir

    @nictru
    nictru committed Sep 18, 2024
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  14. Fix embedding concatenation direction

    @nictru
    nictru committed Sep 18, 2024
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  15. Prevent HVG calculation if reference model is provided

    @nictru
    nictru committed Sep 18, 2024
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  16. Fix editorconfig

    @nictru
    nictru committed Sep 18, 2024
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  17. Update usage docs

    @nictru
    nictru committed Sep 18, 2024
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