Velvet: algorithms for de novo short read assembly using de Bruijn graphs.

  title={Velvet: algorithms for de novo short read assembly using de Bruijn graphs.},
  author={Daniel R. Zerbino and Ewan Birney},
  journal={Genome research},
  volume={18 5},
We have developed a new set of algorithms, collectively called "Velvet," to manipulate de Bruijn graphs for genomic sequence assembly. A de Bruijn graph is a compact representation based on short words (k-mers) that is ideal for high coverage, very short read (25-50 bp) data sets. Applying Velvet to very short reads and paired-ends information only, one can produce contigs of significant length, up to 50-kb N50 length in simulations of prokaryotic data and 3-kb N50 on simulated mammalian BACs… CONTINUE READING
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