Question: DBSNP, Variant Caller
1
gravatar for subhikshananda
5 months ago by
subhikshananda10 wrote:

I have a VCF file from FreeBayes Variant caller. However I want VCF file to have dbSNP (rsID). The reference genome is hg19 (human).

GATK doesn't work on Galaxy.

How to obtain the rsIDs with VCF file on Galaxy?

snp • 198 views
ADD COMMENTlink modified 5 months ago by Guy Reeves1.0k • written 5 months ago by subhikshananda10
1
gravatar for Guy Reeves
5 months ago by
Guy Reeves1.0k
Germany
Guy Reeves1.0k wrote:

use SnpEff Variant effect and annotation. There appears to be two versions installed on usegalaxy.org. Only one ((Galaxy Version 4.0.0)) appears to have the human database you want installed.

ADD COMMENTlink written 5 months ago by Guy Reeves1.0k
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