Kelley, D. R., Schatz, M. C., Salzberg, S. L. (November 2010) Quake: Quality-aware detection and correction of sequencing errors. Genome Biology, 11 (11). ISSN 1474-7596
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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. © 2010 Kelley et al.; licensee BioMed Central Ltd.
| Item Type: | Paper |
|---|---|
| Subjects: | bioinformatics > genomics and proteomics > computers > computer software bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > single nucleotide polymorphism |
| CSHL Authors: | |
| Communities: | CSHL labs > Schatz lab CSHL Cancer Center Program > Cancer Genetics |
| Depositing User: | CSHL Librarian |
| Date: | 29 November 2010 |
| Date Deposited: | 04 Oct 2011 14:19 |
| Last Modified: | 14 Oct 2015 18:37 |
| PMCID: | PMC3156955 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/15450 |
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