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Question: SnpEff custom genome data in Galaxy
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gravatar for barbara.lazzari
11 weeks ago by
barbara.lazzari • 0
barbara.lazzari • 0 wrote:

Hello, I'm trying to use Galaxy to run SnpEff eff with a custom database I prepared with SnpEff version 4.3. Although this is the recommended version in SnpEff eff, the file is automatically recognized as from version 4.0 and this attribute is not editable, so the file is not recognized by the system as a valid custom database. Does anyone know how to overcome this problem? Thank you very much!

snpeff version galaxy index • 120 views
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modified 11 weeks ago • written 11 weeks ago by barbara.lazzari • 0
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gravatar for Jennifer Hillman Jackson
11 weeks ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

The tool wrappers were just updated to address a few problems, including database version issues. The updated wrappers are not on the public usegalaxy* servers yet and at least one other problem has been reported (https://biostar.usegalaxy.org/p/29336/).

We are asking the developers for feedback at Gitter, please follow and/or join in on the conversation here: https://gitter.im/galaxy-iuc/iuc?at=5b96a0e1728ddf02828a72cb

Thanks! Jen, Galaxy team
ADD COMMENT • link written 11 weeks ago by Jennifer Hillman Jackson ♦ 25k
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gravatar for barbara.lazzari
11 weeks ago by
barbara.lazzari • 0
barbara.lazzari • 0 wrote:

Thank you very much, I'll keep updated! All the best!
ADD COMMENT • link written 11 weeks ago by barbara.lazzari • 0
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