Hi Sathya,
The SnpEff tool is set up at this time for annotation with the /C.
elegans/ WS220 genome only. Including human in the future on the public
Main server at http://usegalaxy.org is under current evaluation.
For now, use the tool in a local or cloud Galaxy instance, with the tool
installed from the Tool Shed. Help to get started can be found here:
http://getgalaxy.org
http://usegalaxy.org/cloud
http://usegalaxy.org/toolshed
Take care,
Jen
Galaxy team
On 3/12/14 1:44 AM, Sathya wrote:
I am working on the project to predict SNP from NGS data. I have found
SNP using SAM tools and GATK (used reference hg19). I would like to
know effect of SNP using SNPeff in GALAXY. I have given SNP in vcf
format. I could not change the genome option as human, it is set is
C.elegans by default
Please help me to solve this
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With regards,
Sathya.B
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Jennifer Hillman-Jackson
http://galaxyproject.org
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