SPATA: A highly accurate GUI tool for de novo transcriptome assembly

摘要

RNA-seq reads are sampled from the underlying human transcriptome sequence, consisting of hundreds of thousands of mRNA transcripts. De novo transcriptome reconstruction from RNA-seq reads is a promising approach but facing with algorithmic and computational challenges derived from nonlinear transcript structures and ultra high-throughput read counts. To tackle this issue, we designed a divide-and-conquer strategy to read localization, followed by a novel algorithm to de novo read assembly. Availability: the GUI tool is freely available at http://asammate.sourceforge.net/.