Figure 5.

Accuracy of SNP detection from the S. aureus datasets generated from each platform, compared against the reference genome of its close relativeS. aureus USA300_FPR3757. Both the Torrent server variant calling pipeline and SAMtools were used for Ion Torrent data; SAMtools was used for Illumina data and SMRT portal pipeline for PacBio data. A) The percentage of SNPs detected using each platform overall (blue bar), and outside of repeats, indels and mobile genetic elements (red bar). B) The number of incorrect SNP calls for each platform overall (blue bar), and outside of repeats, indels and mobile genetic elements (red bar).