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# how to understand the annotation and numbers in GATK-generated VCF?

DenverMember Posts: 68

I have been trying to find documentation for understanding the annotations and numbers in the VCF file. Something like below, can someone guide me how to understand/interpret the numbers? How is the quality of the variant calling for this particular indel?

AC=2;
AF=0.100;
AN=20;
BaseQRankSum=6.161;
ClippingRankSum=-2.034;
DP=313;
FS=5.381;
InbreedingCoeff=-0.1180;
MLEAC=2;
MLEAF=0.100;
MQ=58.49;
MQ0=0;
MQRankSum=-0.456;
QD=1.46;
ReadPosRankSum=-4.442;
VQSLOD=0.348;
topculprit=ReadPosRankSum

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