Dec 1, 2010

Quake: quality-aware detection and correction of sequencing errors

Genome Biology
David R KelleySteven L Salzberg

Abstract

We introduce Quake, a program to detect and correct errors in DNA sequencing reads. Using a maximum likelihood approach incorporating quality values and nucleotide specific miscall rates, Quake achieves the highest accuracy on realistically simulated reads. We further demonstrate substantial improvements in de novo assembly and SNP detection after using Quake. Quake can be used for any size project, including more than one billion human reads, and is freely available as open source software from http://www.cbcb.umd.edu/software/quake.

Mentioned in this Paper

Guanine
Severe Acute Respiratory Syndrome
Repetitive Region
M15 protein
Alkalescens-Dispar Group
Heuristics
Genome
Likelihood Functions
Beta vulgaris
AP5Z1 gene

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