Question: Mach Imputed Data To Ped File
gravatar for Ezhil La
8.8 years ago by
Ezhil La10
United Kingdom
Ezhil La10 wrote:


I have done the imputation of my GWAS data with MACH. I would like to create a PED file with allele coding (AA, AT etc) not the dosage. Could you please suggest me how do it? Is there any software available to do this?

Thanks, Ezhil

gwas imputation • 2.6k views
ADD COMMENTlink modified 6.6 years ago by Biostar ♦♦ 20 • written 8.8 years ago by Ezhil La10

Given our experience and recent trends, the better choice for imputation is IMPUTE v2. Can you impute with this instead?

ADD REPLYlink written 8.8 years ago by Larry_Parnell16k

See GTOOL -G option: GEN to PED Conversion mode.

ADD REPLYlink written 6.6 years ago by zx87549.6k
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