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      Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM

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          Abstract

          Summary: BWA-MEM is a new alignment algorithm for aligning sequence reads or long query sequences against a large reference genome such as human. It automatically chooses between local and end-to-end alignments, supports paired-end reads and performs chimeric alignment. The algorithm is robust to sequencing errors and applicable to a wide range of sequence lengths from 70bp to a few megabases. For mapping 100bp sequences, BWA-MEM shows better performance than several state-of-art read aligners to date. Availability and implementation: BWA-MEM is implemented as a component of BWA, which is available at http://github.com/lh3/bwa. Contact: hengli@broadinstitute.org

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          Journal
          16 March 2013
          2013-05-26
          Article
          10.48550/arXiv.1303.3997
          1303.3997
          74ea8625-ebc9-45b7-897e-81f605843371

          http://arxiv.org/licenses/nonexclusive-distrib/1.0/

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          3 pages and 1 color figure
          q-bio.GN

          Genetics
          Genetics

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