Also check which 
includes indices for Bowtie2 [see].

From: shenwiyn <<>>
Reply-To: shenwiyn <<>>
Date: Thursday, August 1, 2013 3:17 AM
To: Gerald Bothe <<>>, 
Subject: Re: [galaxy-dev] reference genomes missing

I think you can get reference genomes from 
UCSC<http://>,and then make 
Bowtie2 index data by bowtie2-build.Other way you can try rsync to get the 
index files ,for more information you can see .
Hope to help you.


From: Gerald Bothe<>
Date: 2013-08-01 01:16
Subject: [galaxy-dev] reference genomes missing
I installed a local instance of GALAXY following the instructions at "Get 
Galaxy ..." in the Wiki. It installed ok, but when I tried the Bowtie2 mapper 
with a test data set, I noticed that the reference genomes are missing. How can 
I get the reference genomes (e.g. latest version of mouse and human) and 
integrate them into Galaxy? Or is there a Galaxy version available that has the 
genomes already installed?


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