Check all log statements re. thresholds applied
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lauracorbin commented
When including/excluding features/samples, in the code itself I think you generally use >=/<=, but then in the printed statements you just use >/<. This is a minor point but i think there needs to be consistency here as if people try to manually produce the same lists of inc/exclusions, if there are any values that are equal to the threshold it will cause slight discrepancies.
hughesevoanth commented
corrected in function perform.metabolite.qc.R