after gatk VariantAnnotator -V *_com_norm.vcf -A AlleleFraction -O *_norm_AB.vcf There "nan,nan" or "nan" in my vcf file

After I run this code

gatk VariantAnnotator -V *_com_norm.vcf -A AlleleFraction -O *_norm_AB.vcf

There are nan,nan or nan in my vcf file

The input file doesn't have nan,nan or nan, it (*_com_norm.vcf) comes form merging (bcftools merge) 3 different vcf files.

Can someone help me?

Thanks very much

"nan,nan"

gatk VariantAnnotator -V *_com_norm.vcf -A AlleleFraction -O *_norm_AB.vcf

"nan"

gatk allelefraction variantannotator

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updated 2.9 years ago by Ram

• written 2.9 years ago by zhuo •

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