publication . Other literature type . Article . 2012

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

Sergey Nikolenko; Alexey Gurevich; Alexander Kulikov; Anton Bankevich; Max A. Alekseyev; Alexander Sirotkin;
Open Access
  • Published: 01 May 2012
Abstract 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 and standard (multicell) assembly, and demonstrate that it improves on the recently released E+V−SC assembler (specialized for single-cell data) and on popular as...
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