Hello Yanming, To set-up native NGS data indexes, please see the instructions in this wiki: http://wiki.g2.bx.psu.edu/Admin/NGS%20Local%20Setup Uploading data into a history in fasta format will allow that dataset to be used as a custom reference genome with most tools, which is another option. This wiki explains how the Custom genome method works: http://wiki.g2.bx.psu.edu/Learn/CustomGenomes Hopefully this helps! Best, Jen Galaxy team On 3/23/12 11:06 AM, Yang, Yanming wrote:
Hi,
I have just installed a Galaxy instance at my local machine and uploaded some sequence data into it. But, when I tried to use some NGS tools which need reference genome, I found the selection window was empty. I wonder how to get a reference genome data (e.g., hg19) incorporated into the local Galaxy.
Any help will be greatly appreciated. Thanks!
Yanming Yang
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