Alta-Cyclic: a self-optimizing base caller for next-generation sequencing

Erlich, Y., Mitra, P. P., Delabastide, M., McCombie, W. R., Hannon, G. J. (2008) Alta-Cyclic: a self-optimizing base caller for next-generation sequencing. Nature Methods, 5 (8). 679 - 682.

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URL: http://www.ncbi.nlm.nih.gov/pubmed/18604217
DOI: 10.1038/nmeth.1230

Abstract

Next-generation sequencing is limited to short read lengths and by high error rates. We systematically analyzed sources of noise in the Illumina Genome Analyzer that contribute to these high error rates and developed a base caller, Alta-Cyclic, that uses machine learning to compensate for noise factors. Alta-Cyclic substantially improved the number of accurate reads for sequencing runs up to 78 bases and reduced systematic biases, facilitating confident identification of sequence variants.

Item Type: Paper
Subjects: bioinformatics > genomics and proteomics
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bioinformatics > genomics and proteomics > analysis and processing > Sequence Data Processing
CSHL Authors:
Communities: CSHL labs > Hannon lab
CSHL labs > McCombie lab
CSHL labs > Mitra lab
Watson School > Publications
Depositing User: Tom Adams
Date Deposited: 12 Jul 2011 15:29
Last Modified: 22 Sep 2014 16:01
PMCID: PMC2978646
Related URLs:
URI: http://repository.cshl.edu/id/eprint/7727

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