Question: Generate .hap file for Gene based test - from 1000G data
gravatar for muralinmars
6.1 years ago by
muralinmars80 wrote:

Hi all,

To be precise. I am doing a gene based test using bayesian approach. For which there are certain prerequisite files, one is the .hap file.

It should contain the details on,

1. freq. of second/minor allele

2. base pair position of the corresponding SNP

3. along with the haplotype details (for the allele combination)

4. and it is for specific population (say for eg., CEU)


One option that i can think of is obviously the 1000g data from the hapmap (VCF data). But got no idea of how to proceed on further (with plink or with any other packages). Any suggestions will be of great help.

Thanks a bunch

sequencing R gene • 2.1k views
ADD COMMENTlink modified 5.0 years ago by Biostar ♦♦ 20 • written 6.1 years ago by muralinmars80
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