Update BAMA methods: positivity call definition - Githubissues

FredHutch / VISCtemplates

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Update BAMA methods: positivity call definition #127

Closed asatofh closed 1 month ago

asatofh commented 4 months ago

Location

inst/templates/methods-bama/bama-statistical-methods.Rmd

Old

The template currently states:

Net MFI values at the screening dilution were greater than the maximum of 100 or the 95th percentile of baseline samples (by antigen).
Net MFI values were greater than three times the baseline background-adjusted MFI minus baseline background-adjusted blank values.
Background-adjusted MFI values were greater than three times the baseline background-adjusted MFI values.

New

It should read:

Net MFI values at the screening dilution were greater than the maximum of 100 or the 95th percentile of baseline samples (by antigen).
Net MFI values were greater than three times the baseline net MFI.
Background-adjusted MFI values were greater than three times the baseline background-adjusted MFI values.

Justification

We should use net MFI throughout the definition, it's not clear why we don't.

kelliemac commented 1 month ago

resolved by https://github.com/FredHutch/VISCtemplates/pull/144