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Extract individual samples from combined gvcf file

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.

gatk combinegvcfs
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written by Shin Taguchi • Shin Taguchi

1 answer

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

note: not tested

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written by size_t • size_t

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

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written by Shin Taguchi • Shin Taguchi

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