Question: Convert Kraken data to Galaxy taxonomy - missing database (usegalaxy)?
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vebaev • 130 wrote:
Hi, I'm trying to use Convert Kraken data to Galaxy taxonomy representation (Galaxy Version 1.1), but on the field "Select a taxonomy database" there is nothing to select? Is this should be something from my history or?
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modified 22 months ago
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Jennifer Hillman Jackson ♦ 25k
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22 months ago by
vebaev • 130
I can reproduce this at http://usegalaxy.org. The Kraken tool is undergoing some dependency updates and this particular reference data is missing right now (it consists of pre-computed indexes, not data from the history). More feedback soon - possibly with a ticket to create/add in the reference data. Thanks for reporting the problem. Jen, Galaxy team
I want also to make this database on my local Galaxy can you advice how to do that? I have installed NCBI taxonomy downloader (Galaxy Version 1.0.0), but it asks for "Enter URL for taxonomy files" and I do not know what to enter?
Is it this way to build such database for Convert Kraken data to Galaxy taxonomy for Krona chart use (for Bacterial 16s metagenomics)? Or I'm in the wrong track?
I haven't done this myself yet within Galaxy, but others from our team have. I will look into it while doing other the tests/reviews and include the how-to in my reply later.
Related post (for data) https://biostar.usegalaxy.org/p/21309