Hi Kanwar,
This tool in Galaxy uses the same expressions as the line command version (to my knowledge). A list of the possible expressions is listed here. The parenthesis are optional when there is just a single expression. http://snpeff.sourceforge.net/SnpSift.html#filter
Hopefully this helps,
Jen Galaxy team
On 12/30/13 2:58 PM, shamsher jagat wrote:
I have a VCF file and I want to filter it for nonsynonymous/ deletion/ insertion seq variations. Once I filter this file and compare between tumor vs normal samples and then annotate such variations. I believe I can filter this file using SnpSift and then can annotate with SnpEff, When I try to use Snsift filter it just says arbitrary expression. Are there rules how to use expression for a particular filter with in galaxy. If any one has used SnpSift in galaxy may share their expertise.
Thanks Kanwar
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