Convert TCGA data to PLINK format
Hello, I am trying to convert the TCGA testicular cancer (TGCT) data to PLINK format (.ped/.fam/.map). I am working with level 2 data. In general I get that I can extra all the data I need from the file GenomeWideSNP_6.na35.annot.csv file and rearrange this into PLINK formats. The thing I'm stuck on is getting zygosity for individual subjects. How can I find and integrate this data?
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jpluta26 •
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