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RefCall/GERMLINE/PASS are FILTER statuses.
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williamrowell committed Oct 27, 2023
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Expand Up @@ -80,9 +80,9 @@ chr1 14003 . C G 43.8 PASS . GT:GQ:DP:AD:VAF:PL 1/1:
In this example:
* The variant with `GERMLINE` INFO field is identified as a germline variant
* The variant with `RefCall` is homozygous to the reference
* The variant with `PASS` in the info field is a **somatic variant**.
* The variant with `GERMLINE` FILTER status is identified as a germline variant
* The variant with `RefCall` FILTER status is homozygous to the reference
* The variant with `PASS` FILTER status is a **somatic variant**.
### Prerequisites
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