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

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

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DOI: 10.1038/nmeth.1230


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

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
School of Biological Sciences > Publications
Depositing User: Tom Adams
Date: August 2008
Date Deposited: 12 Jul 2011 15:29
Last Modified: 22 Sep 2014 16:01
PMCID: PMC2978646
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