Extract individual samples from combined gvcf file

Question

[Shin Taguchi]

Hi, everyone.

Is it possible to extract the gvcf files of a specific individual from the files combined by CombineGVCFs of GATK?

If you have any commands or scripts, I would appreciate it if you could let me know.

Thank you.

Answer 1

[size_t]

you can try : bcftools view --samples-file id.txt your.gvcf

note: not tested

[Shin Taguchi]

Thank you for your prompt reply. It was very helpful.