Hi Nik, Native and custom reference genome indexes cannot be downloaded from Galaxy. However, the Galaxy team knows that this is high interest and a few delivery options are under consideration. Apologies for the delay in reply, Best, Jen Galaxy team On 9/2/11 3:26 PM, Nikhil Joshi wrote:

Hi all,

Just wondering if there is a way to download the bowtie indexed files after indexing. It seems that the indexed output is simply a meta-file that points to the directory where the indexed files are kept.... but what if I want to download all of the indexed files themselves? I wrote something to do this... basically I created an html page that is the output of bowtie-build which then points to the created files... but I'm wondering if there is an easier way...?

- Nik.

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