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obenshaindw/Split VCF by Chromosome

Last active February 4, 2022 09:03
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Split VCF by Chromosome
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Split VCF by Chromosome
seq 1 22 | xargs -n1 -P4 -I {} /usr/bin/vcftools/vcftools_0.1.11/bin/vcftools --gzvcf largevcf.vcf.gz --chr {} --recode --recode-INFO-all --out /split_by_chr/largevcf.chr{}
@jianxinwang
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NIce tool. Can you explain this command-line?

Jason

@stephenwilliams22
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Very nice. for chr1 vs 1 you can replace the beginning with seq -f "chr%1g" 22

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