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Question: Merge WGS .VCF files from multiple individuals into one .VCF file
1
gravatar for lena.chan777
3.0 years ago by
lena.chan777 • 10
lena.chan777 • 10 wrote:

Hello all,

I have WGS (whole genome sequencing) .vcf files for many samples, with each individual's WGS data saved in a single .vcf file. Could anyone give me some suggestions to combine all samples' .vcf files into one big .vcf file containing all samples? All suggestions are very welcome. Many thanks in advance.

PS. I've tried 'plink' and 'gatk -T CombineGVCFs', but neither of them work properly.

Best, Lena
sequence next-gen genome • 3.4k views
ADD COMMENT • link •
modified 3.0 years ago by seraphya • 0 • written 3.0 years ago by lena.chan777 • 10
0
gravatar for seraphya
3.0 years ago by
seraphya • 0
Australia
seraphya • 0 wrote:

https://vcftools.github.io/perl_module.html#vcf-merge

http://samtools.github.io/bcftools/howtos/convert.html
ADD COMMENT • link written 3.0 years ago by seraphya • 0
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