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Open Access Publications from the University of California

Improved variant discovery through local re-alignment of short-read next-generation sequencing data using SRMA

  • Author(s): Homer, Nils
  • Nelson, Stanley F
  • et al.

Abstract A primary component of next-generation sequencing analysis is to align short reads to a reference genome, with each read aligned independently. However, reads that observe the same non-reference DNA sequence are highly correlated and can be used to better model the true variation in the target genome. A novel short-read micro re-aligner, SRMA, that leverages this correlation to better resolve a consensus of the underlying DNA sequence of the targeted genome is described here.

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