qiime2 / q2-longitudinal

QIIME 2 plugin for paired sample comparisons
BSD 3-Clause "New" or "Revised" License
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add compositionally aware paired test #160

Open nbokulich opened 3 years ago

nbokulich commented 3 years ago

Improvement Description Add a compositionally aware method for paired testing of a feature table

Current Behavior pairwise-differences accepts a feature table but the tests implemented (paired wilcoxon, paired t-test) are not really appropriate for relative frequency data.

Proposed Behavior I see two options:

  1. implement a new action specifically for feature tables that performs an appropriate test. E.g., a paired ANCOM test would be quite simple to rig up. A new visualization would be nice 😄 though the old one would work, with modification for multiple testing.
  2. adjust pairwise-differences to accept only transformed feature tables, and implement an appropriate transform somewhere else (e.g., ILR might be implemented in q2-classo?)

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