Fig. 5.

Comparison of inferred bacterial community structures between HmmUFOtu and QIIME-default methods using V4 and V1 V3 mock community datasets. Both mock datasets contain ten replicates sequenced across ten different Illumina MiSeq runs. a, b Inferred and theoretical () mock community compositions for V4 and V1 V3 datasets, respectively, calculated using HmmUFOtu or QIIME-default generated OTU tables. Bars: replicate samples; assembled: pre-processed paired-end merged reads; paired: un-processed paired-end reads. c Community structure dissimilarity between the inferred and reference community structure as calculated by the Bray-Curtis beta-diversity metric. The median is represented by the line in the box, hinges represent the first and third quartiles, whiskers represent 1.5 times the interquartile range, and dots represent outlying data points. d Alpha-diversity of the mock community measured by the inferred number of observed species. Box plots are as above. Left panels: V4 datasets; right panels: V1 V3 datasets