SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

  title={SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing},
  author={Anton Bankevich and Sergey Nurk and Dmitry Antipov and Alexey A. Gurevich and Mikhail Dvorkin and Alexander S. Kulikov and Valery M. Lesin and Sergey I. Nikolenko and Son K. Pham and Andrey D. Prjibelski and Alex Pyshkin and Alexander Sirotkin and Nikolay Vyahhi and Glenn Tesler and Max A. Alekseyev and Pavel A. Pevzner},
  journal={Journal of computational biology : a journal of computational molecular cell biology},
  volume={19 5},
The lion's share of bacteria in various environments cannot be cloned in the laboratory and thus cannot be sequenced using existing technologies. A major goal of single-cell genomics is to complement gene-centric metagenomic data with whole-genome assemblies of uncultivated organisms. Assembly of single-cell data is challenging because of highly non-uniform read coverage as well as elevated levels of sequencing errors and chimeric reads. We describe SPAdes, a new assembler for both single-cell… CONTINUE READING
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