Question: Need help with "SnpEff" tool
0
gravatar for steven_friedenberg
4.0 years ago by
United States
steven_friedenberg0 wrote:

Hi there,

I'm trying to run SnpEff on Galaxy, but the only Genome that it gives me access to is C. elegans. I'm working in the dog genome, and I know there's a SnpEff file that can be downloaded for the dog. How do I get this file into Galaxy? It seems odd that only C. elegans is available...

Thanks.

Steve


 

Tool name: SnpEff
Tool version: 1.0
Tool ID: toolshed.g2.bx.psu.edu/repos/pcingola/snpeff/snpEff/1.0
ToolShed URL: http://toolshed.g2.bx.psu.edu/view/pcingola/snpeff

 

snpeff • 1.5k views
ADD COMMENTlink modified 4.0 years ago by Bjoern Gruening5.0k • written 4.0 years ago by steven_friedenberg0
0
gravatar for Bjoern Gruening
4.0 years ago by
Bjoern Gruening5.0k
Germany
Bjoern Gruening5.0k wrote:

Hi Steven,

unfortunately there is no easy way. You need to convince the Galaxy Server Administrators to include it (Jennifer will help you here, for sure). An other possibility is to run snpeff in your own Galaxy instance.

Sorry for the bad news,

Bjoern

ADD COMMENTlink written 4.0 years ago by Bjoern Gruening5.0k
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