Isaac Aligner
The Isaac Aligner aligns DNA sequencing data, single or paired-end, with read lengths 32–150 bp and low error rates using the following steps:
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Candidate mapping positions—Identifies the complete set of relevant candidate mapping positions using a 32-mer seed-based search. |
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Mapping selection—Selects the best mapping among all candidates. |
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Alignment score—Determines alignment scores for the selected candidates based on a Bayesian model. |
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Alignment output—Generates final output in a sorted duplicate-marked BAM file, and summary file. |
Come Raczy, Roman Petrovski, Christopher T. Saunders, Ilya Chorny, Semyon Kruglyak, Elliott H. Margulies, Han-Yu Chuang, Morten Källberg, Swathi A. Kumar, Arnold Liao, Kristina M. Little, Michael P. Strömberg and Stephen W. Tanner (2013) Isaac: Ultra-fast whole genome secondary analysis on Illumina sequencing platforms. Bioinformatics 29(16):2041-3 bioinformatics.oxfordjournals.org/content/29/16/2041
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