Question: Merge WGS .VCF files from multiple individuals into one .VCF file
1
gravatar for lena.chan777
2.5 years ago by
lena.chan77710
lena.chan77710 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 • 2.7k views
ADD COMMENTlink modified 2.5 years ago by seraphya0 • written 2.5 years ago by lena.chan77710
0
gravatar for seraphya
2.5 years ago by
seraphya0
Australia
seraphya0 wrote:

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

http://samtools.github.io/bcftools/howtos/convert.html

ADD COMMENTlink written 2.5 years ago by seraphya0
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