not getting values for Filter columns with vcf files generated using SAMTOOLS Mpileup

Question

[always_learning]

How to set values for Filter columns with SAMTOOLS vcf files. I am getting "." for all VCF entries.

Is it normal or i need to set some parameters with command ?

This is command : samtools mpileup -DguS -f PMC01-01.bam | bcftools call -vmO z -o PMC01-01.vcf.gz

[Devon Ryan]

No filters have been applied, so only . should appear. See the VCF spec.

[always_learning]

Yes , How I can applied filter while running variant calling with SAMTools ? I

[Matthieu Miossec]

bcftools filter [OPTIONS] FILE (see:https://samtools.github.io/bcftools/bcftools.html )