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US 2014/0274750 A1Published application
Sequence assembly using optical maps
AssigneeOpgen, Inc.
InventorDeacon John Sweeney
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Abstract
The invention generally relates to sequence assembly and particularly to ordering the alignment of contigs to reference maps. The invention provides systems and methods for assembling contigs by aligning those contigs to a reference map in descending order of placement confidence. Each placement decreases the number of possible placements for the remaining contigs, which otherwise would have been likely to match in numerous places. Contigs are thereby placed along the reference genome with confidence and thus can be assembled into a genome-scale sequence assembly.
Claims13
A method of assembling sequence contigs, the method comprising:
- obtaining a plurality of sequence contigs;
- determining a placement confidence score for each contig;
- identifying a subset of the plurality of sequence contigs with a threshold placement confidence score;
- aligning the contigs of the subset to a genomic map;
- and
- aligning a remainder of the contigs to the genomic map.
3 more elements
Dependencies are inferred from the claim text.