title: A survey of error-correction methods for next-generation sequencing.
abstract: Error Correction is important for most next-generation sequencing applications because highly accurate sequenced reads will likely lead to higher quality results. Many techniques for error correction of sequencing data from next-gen platforms have been developed in the recent years. However, compared with the fast development of sequencing technologies, there is a lack of standardized evaluation procedure for different error-correction methods, making it difficult to assess their relative merits and demerits. In this article, we provide a comprehensive review of many error-correction methods, and establish a common set of benchmark data and evaluation criteria to provide a comparative assessment. We present experimental results on quality, run-time, memory usage and scalability of several error-correction methods. Apart from providing explicit recommendations useful to practitioners, the review serves to identify the current state of the art and promising directions for future research.
  
  
  BACKGROUND
  All error-correction programs used in this article are downloaded from hosting websites. The evaluation tool kit is publicly available at: http://aluru-sun.ece.iastate.edu/doku.php?id=ecr.
authors.affiliation: The Broad institute, 7 Cambridge Center, Cambridge, MA 02142, USA. xiaoyang@broadinstitute.org
authors.forename: Xiao
authors.initials: X
authors.lastname: Yang
authors.forename: Sriram P
authors.initials: SP
authors.lastname: Chockalingam
authors.forename: Srinivas
authors.initials: S
authors.lastname: Aluru
mesh_terms: D000465:Algorithms; D000818:Animals; D002874:Chromosome Mapping / Q000706:statistics & numerical data / Q000639:trends; D019295:Computational Biology; D030541:Databases, Genetic / Q000706:statistics & numerical data / Q000639:trends; D005544:Forecasting; D006801:Humans; D016415:Sequence Alignment / Q000706:statistics & numerical data / Q000639:trends; D017422:Sequence Analysis, DNA / Q000706:statistics & numerical data / Q000639:trends*; D012984:Software