QC: dfTransformed inconsistencies

[jonthegeek]

QC Details

The Analyze_Identity() help's "Data Specification" section says that dfTransformed for Analyze_Identity "is typically created using Transform_Rate()."

The parameter help for the same function says dfTrasnformed is created using Transform_Count().

The test file for Analyze_Identity() uses Transform_Rate().

Which one should be used? Is either one acceptable? While we're at it, can we double-check the preferred/required definitions of dfTransformed for each function that uses it? All the other ones say Transform_Rate(), but now I'm not sure whether that's a copy/paste bug.

If functions need one or the other, should we consider renaming the parameters (dfTransformedRate vs dfTransformedCount)?

• [ ] Analyze_Fisher()
• [ ] Analyze_Identity()
• [ ] Analyze_NormalApprox()
• [ ] Analyze_NormalApprox_PredictBounds()
• [ ] Analyze_Poisson()
• [ ] Analyze_Poisson_PredictBounds()
• [ ] Analyze_QTL()

Additional Comments

[jwildfire]

Yeah, need to clean up and document approach here. I'll try to write up a summary soon-ish and then we can decide how to handle documentation. Might want to convert this to a discussion and the file issues for specific updates once we align on approach.

[jwildfire]

FWIW, a lot of this is (maybe confusing/unnecessary) future proofing, that can likely be ignored for the v2.0 release