Thread: SNP calling
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Old 12-19-2012, 02:22 PM   #5
Location: San Diego, CA

Join Date: Dec 2012
Posts: 43

If it makes you feel better, Partek's SNP caller is also about 50x faster than mpileup which is one of the main reasons I went with them. I have not compared it to GATK yet. While it is commercial, it is not expensive and comes with technical support.
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