thank you JC for links.
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merging of multi samples tabix and bzipped vcf files into one vcf file using Perl program.
HI, I want to merge multi sample individual files ( vcf1.vcf.gz, vcf2.vcf.gz.............vcf30.vcf.gz) which has is tabix index and compressed by bgzipp so Is here anyone know the Perl Program for this.
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1 answer
You can use VCFtools https://vcftools.github.io/index.html, it also contains Perl modules
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Is perl mandatory in merging VCF files? You can use bcftools to merge vcfs. You can also use picard's MergeVCFs or GATK combinevariants walker.
Here the link to the current version: http://www.htslib.org/doc/bcftools.html#concat
Thank you cpad0112 for valuable links :) actually I need to do this by using Perl
Then you can use perl API from VCFtools posted by JC below.