Question: What web services can annotate and postprocess a complete human genome VCF coming from Illumina Tru-seq machine?
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gravatar for mathisdead
11 months ago by
mathisdead10
mathisdead10 wrote:

What web services can annotate and postprocess a human genome VCF coming from Illumina Tru-seq machine? Have a whole genome SNP/indel discovery VCF from the Illumina. Young adult patient has a medullary thyroid cancer. Looking for a proper tools to annotate and postprocess it to build good reports and plots. Thx.

ADD COMMENTlink modified 11 months ago by andrew450 • written 11 months ago by mathisdead10
1

a whole human genome VCF ? a faster solution is to download the tool (snpeff, vep) and to run it locally...

ADD REPLYlink written 11 months ago by Pierre Lindenbaum116k
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gravatar for andrew
11 months ago by
andrew450
United States
andrew450 wrote:

I work for this company, so I am biased. iVariantGuide is an easy to use web-based tool that takes VCFs as input (4.1 or higher) and will annotate the file and provide graphical filtering and visualizations. It also can produce pathway enrichment analysis, GO analysis, and can produce an automated written summary. Currently the application has an unlimited trial, but some features are locked unless you get a subscription. It supports, single sample, paired sample, trios, and case-control multi-sample VCFs. Give it a try.

Here's a brief video describing the application.

ADD COMMENTlink written 11 months ago by andrew450
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