UCSC refSeq to rod?

Kath

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Join Date: Nov 2010

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#1

UCSC refSeq to rod?

01-13-2011, 02:45 AM

Hi,

I have downloaded the refSeq genes table from the UCSC website and wish to use it with the GATK IndelGenotyper tool. To do this apparently GATK requires reference-ordered data (rod). Does anyone know how to do this? Is there a script out there that I can use?

Thanks very much,

Kath
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RockChalkJayhawk

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Join Date: Mar 2009

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01-14-2011, 05:58 PM

Originally posted by Kath View Post

Hi,

I have downloaded the refSeq genes table from the UCSC website and wish to use it with the GATK IndelGenotyper tool. To do this apparently GATK requires reference-ordered data (rod). Does anyone know how to do this? Is there a script out there that I can use?

Thanks very much,

Kath

Use this for information. Using the UCSC Table browser is another way.
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