Former User of DNAx Community_93

I introduced the sample id into the vcf file but when I am trying to convert the vcf file to plink files it is giving an error sample files not found. How can I resolve this issue.

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• 21 September 2022 18:53
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Thank you it helped and I was able to screen out specific SNPs . I would like to know how do I link my phenotype eids to genotypic FID or IID?  

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• 20 September 2022 17:23
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I used the bgenix tool to extract specific SNPs. This is the command that I usedbgenix -g ukb_imp_chr${CHR}_v3.bgen \ -i ukb_imp_chr${CHR}_v3.bgen.bgi \ -vcf -incl-rsids ${RSID} | \bcftools rehea...

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• 20 September 2022 21:30
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Thank you. This is helpful but I just want to run GWAS for only 12 imputed SNPs and not the entire imputation data for all chromosomes. Since this is a time-sensitive project you could let me know ...

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• 19 September 2022 16:22
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Thank you this works

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• 23 September 2022 19:00
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