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conversion from CEL file to PLINK format (.map, .ped)

Hi! I'm writing this message because I'm not an expert to treat genetical data and since I want to perform an analysis using PLINK software I would like to ask you how I can convert CEL files to the map and ped format that I can use in PLINK. I'm searching online but I'm not understanding. Also, someone could explain me better the structure of CEL files or where I can find some good references to understand better.

Thank you very much

genome snp
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updated by Giulio Genovese • Giulio Genovese • written by more.u88 • more.u88

1 answer

You can use the affy2vcf bcftools plugin to convert the apt-probeset-genotype output to VCF and then use best practices to convert the VCF output to PLINK. I believe this is the fastest way

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written by Giulio Genovese • Giulio Genovese

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