Problem using ANNOVAR for Gene-based annotation

shiv076

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Join Date: Feb 2022

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Problem using ANNOVAR for Gene-based annotation

02-12-2022, 04:28 PM

Hello,

I am trying to find cancer-specific mutations in the sequenced data.

I am using Samtools and ANNOVAR as a combination.

I was able to create a VCF file with variants calling using Samtools.

Now I am trying to annotate using ANNOVAR. But when I run the command

" table_annovar.pl vcfinput humandb/ -buildver hg38 -out myanno -remove -protocol cosmic -operation f -xref hg38_cosmic_database.txt"

I am getting the following eroor
invalid record found in VCF4 file (at least 8 tab-delimited fields expected):

I am not able to find how to eliminate this error.

Can someone please help with it?
Tags: annovar annotation, bioinformatics, mutationanalysis

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