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Assembles genetic sequences. VCAKE is able to assemble millions of small nucleotide reads even in the presence of sequencing error. It extends the seed sequence one base at a time using the most commonly represented base from these matching reads, provided that the set of reads passes certain conditions. The tool may be a step towards the assembly of larger bacterial genomes from short reads, particularly with the development of superior base calling or paired end technology.

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VCAKE classification

VCAKE specifications

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Command line interface
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VCAKE distribution


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VCAKE support


  • William Jeck <>


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Department of Biology, University of Carolina—Chapel Hill, Chapel Hill, NC, USA; Department of Genetics, Washington University School of Medicine, St. Louis, MO, USA; Carolina Center for Genome Sciences, University of Carolina—Chapel Hill, Chapel Hill, NC, USA

Funding source(s)

Supported by Carolina Center for Genome Sciences and National Institutes of Health Grant RO1GM066025.

Link to literature

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