Question: Subsetting individuals from IMPUTE2 ref files: .hap and .legend
gravatar for GabrielMontenegro
4.6 years ago by
United Kingdom
GabrielMontenegro560 wrote:

I wanted to do some analysis using the phased data from the 1000 Genomes Project. I found that Impute2 provides the 1KG data phased, which is used for imputation: A file with haplotype information called .hap and with the variant information called .legend. However, I only want to work with a subset of the individuals and I couldn't find an option to subset a number of individuals from the hap file.

Any idea how I could do it?

Thank you.

impute2 genome • 1.9k views
ADD COMMENTlink written 4.6 years ago by GabrielMontenegro560

I have that question too, imputation only choose one population as reference panel do you know how to do it now? I would like to extract CHS CHB population out from .sample, .legend and .hap file of impute2 reference data phase3.

ADD REPLYlink written 3.6 years ago by Peter Chung120
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