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GATK GenotypeGVCFs explain

Hello,

Could you explain to me what GentypeGVCFs does and what it gives in output.

Thank you.

calling gatk variant genotypegvcfs
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written by Nobody • Nobody

GenotypeGVCFs takes a set of GVCF files called with HaplotyperCaler and output a VCF file.

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written by Pierre Lindenbaum Pierre Lindenbaum

what does the option L

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written by Nobody • Nobody

It limits the operation to some genomic regions given as parameter

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written by raphael.B • raphael.B

1 answer

The official explaination of GenotyeGVCF is here (4.1.5.0), as the document said it has two types of working mode, for multiple samples and single sample.

I think the GATK document is sufficient for you to know about the function.

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written by Zeng Jingyu • Zeng Jingyu

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