Question: result of imputation is vice versa
0
gravatar for fatima
2.5 years ago by
fatima10
fatima10 wrote:

Dear all,

I impute some SNP that I have their real genotype by minimac3. I checked strand alignment and remove problematic SNPs and phased them by shapit. the result of imputation for rs... is AG , but the reall genotype in my data set is GA, or for another one imputed SNPs is CT but the real one is TC (while some of them are the same).

What is the reason? Is it because of a problem in my procedure? What should I do for that?

Thank you in advance for your help.

ADD COMMENTlink written 2.5 years ago by fatima10
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1418 users visited in the last hour