Allele flipping

[Lynne]

Hi

I am trying to impute genotypes using hapmap data as a reference on a
linux platform. I used the -wbg option and on looking at the output
data alleles seem to have been flipped, e.g. for an AG snp individuals
with GG genotype in the input file have AA genotype in the output
file. Is this a bug or am I doing something daft?

Thanks

Lynne

[Yongtao Guan]

Hi Lynne,

Yes, this is a bug found in version 0.99.
Thank you for reporting this.

Grant

--
Yongtao Guan, PhD
Postdoctoral Fellow
Dept of Human Genetics
University of Chicago
http://home.uchicago.edu/~ytguan/