Question: [gatk 3.6.0] GVCF - haplotypecaller - cross referencing multiple VCF
gravatar for agamemnon
4 months ago by
agamemnon0 wrote:

Hi there,

how do you make a GVCF file from bam files, using [gatk 3.6] haplotypecaller if wanting to compare patient with their two parents?

I have three vcf files, but no gvcf files. I would like to be able to compare de novo as well as inherited variants. Are there any alternative processes apart from using GATK [3.6.0] GenotypeGVCF, followed by SelectVariants and then running the annotation software/database?



gvcf vcf haplotypecaller • 139 views
ADD COMMENTlink written 4 months ago by agamemnon0
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