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Old 04-10-2018, 11:10 AM   #1
dganiewich
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Location: Buenos Aires

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Default Ion Torrent analysis on local Galaxy

Hello everyone!

I have recently created a local galaxy instance, and I would like to run the Torrent Variant Caller (TVC) tool on it. I have already managed to install TMAP.

I have not been able to find it in the main ToolShed. I did find it though on a public server (https://galaxy-public.curie.fr/) but doesn't seem to have its tools for use in local instances.

Does anyone know how to install TVC (or the whole Torrent Suite) on my local galaxy instance?

Thank you!

Daiana
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Old 04-19-2018, 05:02 AM   #2
r.rosati
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Hi, I can't help directly but I'd suggest you contact the administrator (galaxy.contact {a-t} curie.fr) and ask if they could share their wrapper for the TVC.
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Old 04-19-2018, 07:35 AM   #3
dganiewich
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Thanks r.rosati!
I have already written them. Their answer is that they don't give support to their local galaxy instance anymore, so the TVC version is old and the wrapper won't work.
As I believe the wrapper would still work or will do with minor corrections, I kindly ask for their xml file but haven't received any answer yet.
I'll let you know when I have more info!
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Old 04-19-2018, 07:40 AM   #4
r.rosati
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Thank you!
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bioinformatics, galaxy, ion torrent, torrent suite, torrent variant caller

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