SHORTY is a tool for de novo genome assembly of short reads, in particular reads generated from the SOLiD sequencing platform. It implements single seed reads to crystallize assemblies and estimates inter-contig distances from spanning paired-end reads.
Hossain MS, Azimi N, Skiena S "Crystallizing short-read assemblies around seeds." BMC Bioinformatics. 2009 Jan 30;10 Suppl 1:S16. https://doi.org/10.1186/1471-2105-10-S1-S16
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