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Old 10-09-2011, 10:59 AM   #1
Location: Seattle

Join Date: Jul 2011
Posts: 98
Default confused by all the 1000 Genomes fastq files

I would like to get data from the main 1000 Genomes project (not just the pilot project). I would like to get exome fastq files. I go to their ftp site here (in this case to get data for NA11843):

I see a ton of fastq files in here and I'm having trouble figuring out what is what. Are any of these exome capture data, and if so, which ones? I've dug around a lot trying to find this information, but somehow I just can't find it. I assume that there must be exome data in here, in part because this same person has alignment files in this path:

Thank you.

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Old 10-10-2011, 03:42 AM   #2
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Location: china

Join Date: Aug 2011
Posts: 1
Smile exome alignment

In my opinion, maybe you can find the data on the site:*****/exome alignment.

Hope to be helpful for you.
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Old 10-11-2011, 02:46 AM   #3
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Location: Cambridge UK

Join Date: Sep 2008
Posts: 151

Our sequence data and all associated meta data is described in our sequence index file

This file is described in

The column you will be most interested in is 26 which describes the analysis group a run belongs to. All lanes labelled with exome are part of the exome sequencing project
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Old 10-11-2011, 06:43 AM   #4
Location: Seattle

Join Date: Jul 2011
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Thanks so much. That's exactly what I was looking for.

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