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. 2017 Apr 6;2017:bax009. doi: 10.1093/database/bax009

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© The Author 2017. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 1. — The transcriptome-guided Assembly (TGA) pipeline. Transcripts are combined to form a union model consisting of all exons present for each isoform. The resulting sequence is used as the initial “assembly.” The assembly is aligned to the DNA reads using BLAST, and all aligning reads are retrieved. The Reads are assembled using Velvet, and ordered according to the order of the corresponding exons in the transcript models. After gap filling, this process is repeated until subsequent applications do not change the assembly.