Sealer: a scalable gap-closing application for finishing draft genomes

@inproceedings{Paulino2015SealerAS,
  title={Sealer: a scalable gap-closing application for finishing draft genomes},
  author={Daniel Paulino and Ren{\'e} L. Warren and Benjamin P. Vandervalk and Anthony Raymond and Shaun D. Jackman and Inanç Birol},
  booktitle={BMC Bioinformatics},
  year={2015}
}
BackgroundWhile next-generation sequencing technologies have made sequencing genomes faster and more affordable, deciphering the complete genome sequence of an organism remains a significant bioinformatics challenge, especially for large genomes. Low sequence coverage, repetitive elements and short read length make de novo genome assembly difficult, often resulting in sequence and/or fragment “gaps” – uncharacterized nucleotide (N) stretches of unknown or estimated lengths. Some of these gaps… CONTINUE READING
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Results and Topics from this paper.

Key Quantitative Results

  • We demonstrate how it scales to successfully close 50.8 % and 13.8 % of gaps in human (3 Gbp) and white spruce (20 Gbp) draft assemblies in under 30 and 27 h, respectively – a feat that is not possible with other leading tools with the breadth of data used in our study.
  • We demonstrate how it scales to successfully close 50.8 % and 13.8 % of gaps in human (3 Gbp) and white spruce (20 Gbp) draft assemblies in under 30 and 27 h, respectively – a feat that is not possible with other leading tools with the breadth of data used in our study.

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