Fig. 4

Assessment of the SOPs with the MOSAIC Standards Challenge samples. a Abundance of five major phyla across the five fecal samples (designated as 1 to 5 following the MOSAIC Standards Challenge naming), expressed as the proportion of reads assigned to each phylum. Violin plots show the distribution of publicly available data in the MOSAIC Standards Challenge database, and gray symbols show data for protocols N (squares), P (circles) and Q (diamonds), with individual measurements results shown for each protocol. b Proportion of reads assigned to the species M. smithii for fecal sample 2. Datasets are ranked by decreasing abundance, white circles are for public data, and gray symbols show individual results for protocols N, P and Q as in panel a. c Shannon diversity across fecal samples. d Distribution of Aitchison distances to protocol Q. The short black horizontal lines show the distance between two technical replicates for protocol Q. For panels c and d, gray symbols show individual results for protocols N, P and Q as in panel a, and boxplots show the distribution of public data in the MOSAIC Standards Challenge database. For the boxplots, the tick horizontal line represents the median, hinges show the 25th and 75th percentiles, whiskers extend to the largest and smallest value at most 1.5× the IQR (interquartile range) from the upper and lower hinges, respectively, and outlying datapoints beyond the end of the whiskers are shown as black circles. For all panels, larger symbols represent data deposited to the MOSAIC Standards Challenge website and smaller symbols are for additional replicates available in the SRA (see Table S8). Symbol shapes are common for all panels