Mach Imputed Data To Ped File

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12.8 years ago

Ezhil La ▴ 40

Hi,

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 • 3.4k views

ADD COMMENT • link updated 10.7 years ago by Biostar 20 • written 12.8 years ago by Ezhil La ▴ 40

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

ADD REPLY • link 12.8 years ago by Larry_Parnell 16k

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

ADD REPLY • link 10.7 years ago by zx8754 12k

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