I’m able to run everything fine and get plots that indicate two features are significantly different (appear red in the volcano plots). However, when I do the next part of the tutorial to extract these features, it appears they are not significant. If I run:
qiime aldex2 extract-differences \ --i-table gut-test/differentials.qza \ --o-differentials gut-test/sig_gut \ --p-sig-threshold 0.1 \ --p-effect-threshold 0 \ --p-difference-threshold 0
I get the error: " You have selected a significance threshold that is lower than minimum Q score (-p–sig-threshold). Select a higher threshold."
edit: tagging @dgiguer