TABLEĀ 2

Details of computational methods for identifying and removing contaminants

MethodDetailsParameters evaluated
Filter, negative controlASVs present in the negative control are removedNone
Filter, abundanceASVs below a relative abundance threshold are removedAbundance threshold, 0.01%, 0.10%, or 1.00%
Decontam, frequencyASVs with a correlation with DNA concentration are removedThreshold parameter, 0.1, 0.2, 0.3, 0.4, or 0.5
SourceTracker, scenario 1; experimental source environment is well definedProportions of ASVs predicted to not be from a defined experimental source are removedSource environments; for case 1, mock community profile + contaminant profile + negative-control profile; for case 2, mock community profile + negative-control profile
SourceTracker, scenario 2; experimental source environment is not definedProportion of ASVs predicted to be from a contaminant source are removedSource environments; for case 1, contaminant profile + negative-control profile; for case 2, negative-control profile