The frontline support team will be slow on the forum because we are occupied with the GATK Workshop on March 21st and 22nd 2019. We will be back and more available to answer questions on the forum on March 25th 2019.
VQSR tag in FILTER is false positive variant ?
I wonder whether after VQSR , the variants which have VQSR tag in FILTER column filter out, including VQSRTrancheINDEL99.00 to 99.90, VQSRTrancheINDEL99.90 to 100.00+, VQSRTrancheINDEL99.90 to 100.00, VQSRTrancheSNP99.90 to 100.00, VQSRTrancheSNP99.90 to 100.00+? These means are false positive variants?
and What do 100.00+ mean?
Can I have Only "PASS" variants tin FILTER tab as true positve variant ?