Good Indel Calling Options?

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Hkins552

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Join Date: Jun 2011

Posts: 18
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#1

Good Indel Calling Options?

08-24-2011, 10:29 AM

Hi All,
I've found some dated posts regarding indel calling options in GATK, samtools, dindel, etc. What are the most current and suggested pipelines for indel calling?
Thanks!
Tags: indel
swbarnes2

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Join Date: May 2008

Posts: 910
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#2

08-24-2011, 12:33 PM

Dindel is generally considered the best. But I've found up to 7-base indels fine with samtools and bwa.
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