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. 2013 Mar 19;8(3):e58700. doi: 10.1371/journal.pone.0058700

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© 2013 Sun et al

This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.

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The genotyping quality score was used to select qualified markers and individuals for subsequent analysis. This is a dynamic optimization process. We counted low-quality markers for each SLAF marker and for each individual, and deleted the worst marker or individual. We repeated this process, deleting an individual or a marker each time until the average genotyping quality score of all SLAF markers reached the cutoff value, which was 13. (a)Detailed genotyping quality of SLAF-seqdata. (b) Cumulative quality score distribution of 7559 markers in 166 individuals.