HECTOR: a parallel multistage homopolymer spectrum based error corrector for 454 sequencing data.

ABSTRACT:

Background

Current-generation sequencing technologies are able to produce low-cost, high-throughput reads. However, the produced reads are imperfect and may contain various sequencing errors. Although many error correction methods have been developed in recent years, none explicitly targets homopolymer-length errors in the 454 sequencing reads.

Results

We present HECTOR, a parallel multistage homopolymer spectrum based error corrector for 454 sequencing data. In this algorithm, for the first time we have investigated a novel homopolymer spectrum based approach to handle homopolymer insertions or deletions, which are the dominant sequencing errors in 454 pyrosequencing reads. We have evaluated the performance of HECTOR, in terms of correction quality, runtime and parallel sca

SUBMITTER: Wirawan A 

PROVIDER: S-EPMC4023493 | biostudies-literature | 2014 May

REPOSITORIES: biostudies-literature