How to annotate vcf file using annovar?

man4ish · 02-15-2015, 01:23 AM

Hi,

How can i annotate vcf file using Annovar?

I used following command but i found no output and all input goes to invalid file.

perl annotate_variation.pl -buildver hg19 ../input.vcf humandb/

Do i need to add some prefix in command?

lindenb · 02-15-2015, 03:54 AM

cross-posted https://www.biostars.org/p/131099

GenoMax · 02-15-2015, 05:30 AM

Have you gone through the example at the top of the page with the test data: http://www.openbioinformatics.org/an...r_startup.html

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02-15-2015, 01:23 AM	#1
man4ish Junior Member Location: OK Join Date: Jan 2010 Posts: 7	How to annotate vcf file using annovar? Hi, How can i annotate vcf file using Annovar? I used following command but i found no output and all input goes to invalid file. perl annotate_variation.pl -buildver hg19 ../input.vcf humandb/ Do i need to add some prefix in command?

02-15-2015, 03:54 AM	#2
lindenb Senior Member Location: France Join Date: Apr 2010 Posts: 143	cross-posted https://www.biostars.org/p/131099

02-15-2015, 05:30 AM	#3
GenoMax Senior Member Location: East Coast USA Join Date: Feb 2008 Posts: 7,080	Have you gone through the example at the top of the page with the test data: http://www.openbioinformatics.org/an...r_startup.html