How to make .ped and .map files

How to make .ped and .map files

0

Hello

I have a dataset but I need to create .ped and .map files (as I understand) in order to use plink to run a GWAS.

However, I do not know what files I need to use in order to create them, is there a file extension I need to look for?

The folders I have are :
phg000199.v1.CIDR_AlcoholDependence.genotype-original-submission.c1.ARC.set2.tar
phg000199.v1.CIDR_AlcoholDependence.raw-data-idat.c1.ARC.set3.tar

inside phg000199.v1.CIDR_AlcoholDependence.genotype-original-submission.c1.ARC.set2.tar:
phg000199.v1.CIDR_AlcoholDependence.genotype-original-submission.c1.set2/Gelertner_Omni1_Release_NCBI_FinalReport_Yale_0005@0095438727.csv.gz
phg000199.v1.CIDR_AlcoholDependence.genotype-original-submission.c1.set2/Gelertner_Omni1_Release_NCBI_FinalReport_Yale_0006@0095438716.csv.gz
etc

Inside phg000199.v1.CIDR_AlcoholDependence.raw-data-idat.c1.ARC.set3.tar:
phg000199.v1.CIDR_AlcoholDependence.raw-data-idat.c1.set3/5202331162_R03C01_Red.idat.gz
phg000199.v1.CIDR_AlcoholDependence.raw-data-idat.c1.set3/5202357025_R03C01_Grn.idat.gz
etc.


GWAS


.PED


.MAP


PLINK

• 20 views

Read more here: Source link