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Fix range to be sensible given the unit #155

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manuelburger
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@manuelburger manuelburger commented Dec 16, 2024

Tiny fix in the docs here, SpO2 values measured in % should never be above 100 (it's a percentage). If they are, this should be dealth with somewhere else as noise, outliers, etc.

Summary by CodeRabbit

  • Documentation
    • Enhanced clarity and functionality descriptions in the README for the Automatic Cohort Extraction System (ACES).
    • Added support details for the latest versions of polars and MEDS.
    • Introduced new features for defining nested derived predicates and improved querying capabilities.
    • Corrected maximum value for normal SpO2 levels in configuration examples.
    • Clarified installation instructions and expanded FAQs section.
    • Outlined a future roadmap for planned improvements and features.

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coderabbitai bot commented Dec 16, 2024

Walkthrough

The pull request focuses on updating the README.md for the Automatic Cohort Extraction System (ACES). The changes enhance documentation clarity, update library version support for polars and MEDS, and refine predicate definition details. The documentation now provides more comprehensive guidance on configuring predicates, defining complex querying capabilities, and clarifying installation instructions. The modifications aim to improve user understanding and usability of the ACES library.

Changes

File Change Summary
README.md - Updated library support versions (polars to 1.17.1, MEDS to 0.3.3)
- Corrected normal_spo2 maximum value from 120 to 100
- Enhanced predicate definition documentation
- Expanded installation and configuration instructions
- Added FAQs and future roadmap sections

Poem

🐰 In the realm of data's wild terrain,
ACES hops with predicates' refrain,
Versions bumped, docs now shine bright,
Cohorts extracted with rabbit's might!
A library leaping, clear and clean,
Where complex queries dance between! 🔍


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Actionable comments posted: 0

🧹 Nitpick comments (1)
README.md (1)

206-215: LGTM! The SpO2 range correction improves medical accuracy.

The change from 120 to 100 as the maximum value for SpO2 is correct since oxygen saturation is measured as a percentage and cannot exceed 100%. This makes the documentation more accurate and helps users better understand how to handle potential outliers in their data.

Consider adding a note explaining that values above 100% should be treated as measurement errors or noise in the data preprocessing step.

  normal_spo2:
    code: lab//O2 saturation pulseoxymetry (%)     # required <str>//<str>
    value_min: 90                                  # optional <float/int>
    value_max: 100                                 # optional <float/int>
    value_min_inclusive: true                      # optional <bool>
    value_max_inclusive: true                      # optional <bool>
    other_cols: {}                                 # optional <dict>
+   # Note: SpO2 values above 100% should be treated as measurement errors
+   # or noise during data preprocessing.
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Reviewing files that changed from the base of the PR and between 401dc0b and e96b08e.

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  • README.md (1 hunks)

@justin13601
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Thank you for catching this!

@justin13601 justin13601 merged commit 674939b into justin13601:main Dec 20, 2024
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2 participants