Difference between revisions of "BWA"

Latest revision as of 16:17, 22 October 2014

$ /path/to/bwa index <my fasta file>

$ /path/to/bwa mem <db name> <fastq file> > <sam file>

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+== Building a database ==
+ $ /path/to/bwa index <my fasta file>
+== Mapping ==
+ $ /path/to/bwa mem <db name> <fastq file> > <sam file>
 == See also ==
 * Project website - http://bio-bwa.sourceforge.net/
+* Manual - http://bio-bwa.sourceforge.net/bwa.shtml
+* References
+** bwa-backtrack http://bioinformatics.oxfordjournals.org/content/25/14/1754
+** bwa-sw http://bioinformatics.oxfordjournals.org/content/26/5/589
+** fastmap (SNP calling) http://bioinformatics.oxfordjournals.org/content/28/14/1838
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 [[Category:HowTo]]