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Old 01-26-2011, 12:52 PM   #1
mpiro
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Default 1KG SNPs and Indels file

Greetings,

Is there any place to download 1000 genome SNPs and Indels data in a single merged file for each pilot (pilot 1 , 2 , and 3) ?
I am trying to use GATK and thought to use 1KG indels and SNPs vcf files to recalibrate my calls.

I apprecite your input.
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Old 01-26-2011, 01:17 PM   #2
mpiro
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found them here:

ftp://ftp.1000genomes.ebi.ac.uk/vol1..._data/release/

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Old 01-29-2011, 03:17 PM   #3
pirooz
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I have the same question but I can't figure out which files to use. There are many folders and looks confusing to me.

Can you or someone please explain which files to use?

Thanks in advance.

.
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Old 01-30-2011, 05:39 PM   #4
Michael.James.Clark
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Quote:
Originally Posted by mpiro View Post
You can just download all the Phase 1 data already merged from them. Check the 1000genomes.org site and the December update.

pirooz, there's a README in with the Phase 1 release from December that explains what everything is.
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Old 01-31-2011, 04:55 AM   #5
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Thanks Michael ... appreciate your comment.
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