BWA

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Alignment commands

 bwa index -p hg19bwaidx -a bwtsw wg.fa
 bwa aln -t 4 hg19bwaidx s_3_sequence.txt.gz >  s_3_sequence.txt.bwa

References

Website

http://bio-bwa.sourceforge.net/

Tutorial

http://icb.med.cornell.edu/wiki/index.php/Elementolab/BWA_tutorial

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