Coefficient of variation 1 - Feature level metric #129
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lucas-diedrich
November 26, 2025 10:31
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Pull request overview
This PR implements a coefficient of variation (CV) metric computed at the feature level for proteomics data analysis. The CV is a scale-invariant measure of dispersion useful for assessing measurement reproducibility and biological heterogeneity.
- Adds
coefficient_of_variation()function to compute CV for features in AnnData objects - Includes comprehensive parametrized tests covering different configurations (min_valid thresholds, layer selection, copy behavior)
- Exports the new function in the metrics module
Reviewed changes
Copilot reviewed 4 out of 4 changed files in this pull request and generated 4 comments.
| File | Description |
|---|---|
src/alphapepttools/metrics/_feature_level.py |
Implements _cv() helper function and coefficient_of_variation() public API for computing feature-wise CV with configurable minimum valid sample thresholds |
tests/metrics/test__feature_level.py |
Adds comprehensive parametrized tests for CV computation with ground truth validation across different min_valid values, layers, and copy modes |
src/alphapepttools/metrics/__init__.py |
Imports the new coefficient_of_variation function into the metrics module |
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mschwoer
approved these changes
Dec 4, 2025
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Compute coefficient of variation on a feature level.