Availability of supporting data
Raw Illumina reads are available in the SRA repositories with accession numbers [SRP221010 (Synthetic mix [44] and Field-Samples-1 [45]) and SRP238323 (Field-Samples-2 [46])]. MAUI-seq scripts are available in the GitHub repositoryhttps://github.com/jpwyoung/MAUI. A detailed protocol for sampling, sample preparation, and read processing is available in Additional file 1 . Scripts used for DADA2, UNOISE3, and figure generation are available inAdditional file 3 , 4 , and 5 , respectively. Detailed output sequences for all three methods are available inAdditional file 2 .