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Old 01-13-2011, 02:45 AM   #1
Kath
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Location: Oxford

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Default UCSC refSeq to rod?

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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Old 01-14-2011, 05:58 PM   #2
RockChalkJayhawk
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Quote:
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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