Question: Need help with "SnpEff" tool
gravatar for barnabe
4.1 years ago by
United States
barnabe0 wrote:



Tool name: SnpEff
Tool version: 1.0
Tool ID:
ToolShed URL:

I would like to have my work genome (Anopheles-darlingi-Coari_BASEFEATURES_AdarC3.2.gff3.gz) as a reference here, how could I have it done?

Thanks in advance.

snpeff • 1.0k views
ADD COMMENTlink modified 4.1 years ago by Jennifer Hillman Jackson25k • written 4.1 years ago by barnabe0
gravatar for Jennifer Hillman Jackson
4.1 years ago by
United States
Jennifer Hillman Jackson25k wrote:


This is correct, this database is not supported by the tool on the public Galaxy Main instance (

To use it with your genome, a local or cloud Galaxy would be needed:

Then install the tool from the Tool Shed and add in appropriate reference annotation.

Check the SnpEff web site first to ensure availability:


One good choice for the tool is this Tool Shed repository (register and/or log into the Tool Shed to see full details):
It includes references to the appropriate Data Managers to install the annotation 

Best, Jen, Galaxy team

ADD COMMENTlink written 4.1 years ago by Jennifer Hillman Jackson25k
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