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Old 08-06-2014, 12:34 AM   #15
dpryan
Devon Ryan
 
Location: Freiburg, Germany

Join Date: Jul 2011
Posts: 3,480
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Since you mention SNP calling, you'll want to use a tools like BWA or bowtie2 rather than tophat for alignment. Aside from that, I'm in agreement with WhatsOEver.
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