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Old 08-06-2014, 12:51 AM   #16
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Location: Germany

Join Date: Apr 2012
Posts: 215

Originally Posted by dpryan View Post
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.
I mentioned tophat as it has imo the best documentation and is therefore the easiest to start with. But in the end, it might not be the best solution here.
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