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An Algorithm for the Automated Verification of DNA Supercontig Assemblies

  • Nikola Stojanovic
Part of the Lecture Notes in Computer Science book series (LNCS, volume 3907)

Abstract

Genome sequencing has achieved tremendous progress over the last few years. However, along with the speedup of the process and an ever increasing volume of data there are continuing concerns about the quality of the assembled sequence. Many genomes have been sequenced only to a draft, leaving the data in a series of more–or–less organized scaffolds, and many feature a small, but not negligible number of misassembled pieces. In this paper we present a new method for automated flagging of potential trouble spots in large assembled supercontigs. It can be incorporated into existing quality control pipelines and lead to a considerable improvement in the sensitivity to certain types of errors.

Keywords

Actual Coverage False Positive Ratio International Human Genome Sequencing Consortium Duplicate Area Coverage Redundancy 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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Copyright information

© Springer-Verlag Berlin Heidelberg 2006

Authors and Affiliations

  • Nikola Stojanovic
    • 1
  1. 1.Department of Computer Science and EngineeringThe University of Texas at ArlingtonArlingtonUSA

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