Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Forum
Planet
All »
Home
Log In
Question: Need help with "SnpEff" tool
0
gravatar for steven_friedenberg
4.5 years ago by
steven_friedenberg • 0
United States
steven_friedenberg • 0 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 • 1.7k views
ADD COMMENT • link •
modified 4.5 years ago by Bjoern Gruening ♦ 5.1k • written 4.5 years ago by steven_friedenberg • 0
0
gravatar for Bjoern Gruening
4.5 years ago by
Bjoern Gruening ♦ 5.1k
Germany
Bjoern Gruening ♦ 5.1k 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 COMMENT • link written 4.5 years ago by Bjoern Gruening ♦ 5.1k
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 172 users visited in the last hour