Advances in sequencing technology and improvements in assembly algorithms are yielding increasingly accurate and complete genomes. However, the process of constructing a comprehensive and credible assembly remains a challenge, particularly in the case of large eukaryotic organisms. The assembly process may omit finishing or improvement, often due to time constraints and the expense of additional resources. There are also situations where extensive genome improvement is limited even when time and resources are readily available, because of large repetitive regions in the genome. To address the need of improved new assemblies with minimal costs we present a genome scaffolder, pbSandwich. pbSandwich leverages small quantities of long-read sequence information coupled with improved algorithmic techniques to greatly improve existing low-quality assemblies with minimal costs.
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