Help in understanding PSEQ error from istats command

Hi all,

I am trying to use i-stats command in plinkseq and in the output text file i get this at the end:

plinkseq warning: problem converting . (repeated 100718 times)
:::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::

 plinkseq warning: undefined FILTER field (absent in VCF header) : LowQual
 plinkseq warning: undefined FILTER field (absent in VCF header) : VQSRTrancheINDEL99.00to99.90
 plinkseq warning: undefined FILTER field (absent in VCF header) : VQSRTrancheSNP99.90to100.00
 plinkseq warning: undefined FILTER field (absent in VCF header) : VQSRTrancheINDEL99.90to100.00
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::

Can anybody help me understand these warnings?

software error snp plink

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updated 10.0 years ago by Biostar

• written 10.2 years ago by Shab86

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