Additional file 4.

Analysis of DNA samples from known eukaryotes using BROCC, MARTA, and MEGAN. (a) 18S rRNA gene amplicons classified by all three classifiers. (b) ITS rRNA gene amplicons classified by all three classifiers. The sample tested is listed along the x-axis. Individual OTUs in each sample are shown by the points, which are sized in proportion to their read counts. A point is colored by the program and configuration used to classify that point. These data were classified by BROCC using default settings, MARTA using default settings, MARTA using a BLAST word size and voting thresholds to match the BROCC default settings, MEGAN using default settings and the same blastn output used by BROCC, and MEGAN using an abbreviated blastn output with a maximum of five hits per query sequence. The lowest level of correct classification for each OTU is listed on the y-axis.

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Dollive et al. Genome Biology 2012 13:R60   doi:10.1186/gb-2012-13-7-r60