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Old 06-08-2010, 09:22 AM   #1
jjw14
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Location: Missouri

Join Date: Apr 2010
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Question Upload genome index to Galaxy for Bowtie alignment?

On the Galaxy web interface, the option to map sequences with Bowtie for Illumina reads is listed under the Tools heading "NGS: Mapping".

"Will you select a reference genome from your history or use a built-in index?" is the first question at the top of the web page. The options are: "Use a built-in index" or "Use one from the history".

If I have a genome index that is not available on the "built-in" list, can I upload this index file to Galaxy under the Get Data page and then select it under "Use one from the history"?

The index file is 3 GB, so any advice is appreciated before I try to upload it.

Thanks,
jjw
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