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. 2014 Jan 31;5:13. doi: 10.3389/fgene.2014.00013

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Copyright © 2014 MacManes.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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The number of complete exons contained in the final transcriptome assembly is related to the strength of quality trimming for any of the studied sequencing depths, Trimming at Phred = 20 was always associated with poor performance. Data are normalized to the number of complete exons obtained in the most favorable trimming level for each dataset. Negative numbers indicate the detrimental affect of trimming. 10, 20, 50, 75, 100 M refer to the subsamples size. 10 M replicate is the technical replicate, 10 M alt. dataset is the secondary dataset.