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Standardizes deconvolution predict() output to match other models (samples as index, cell types as columns). Updates expected outputs and the deconvolution example accordingly. Fixes #161.

@marcbal77 marcbal77 self-requested a review January 6, 2026 04:22
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marcbal77 commented Jan 6, 2026

Thanks for the contribution @Sprengmeister-dev. The core logic looks correct and addresses the transposed output issue for deconvolution models. Before we can merge, please:

  1. Run make format - Black formatting isn't passing. See development.md for details.
  2. Run make test - Please confirm all tests pass locally before pushing.

The fix itself is clean and the approach is solid. Once formatting is addressed, this should be good to merge.

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@sarudak sarudak left a comment

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LGTM

@marcbal77 marcbal77 merged commit 182f0aa into bio-learn:master Jan 6, 2026
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Suggestion: Standardize model.predict() output format across all models

4 participants