-
Notifications
You must be signed in to change notification settings - Fork 12
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
The reference of the HR #30
Comments
I think you need to use the following option: flip.dosage=FALSE It worked for me.!! |
Thanks. Do you know the "HRs" generated in the results take A0 or A1 as reference then? |
Hi, And I'll check it again. |
Later I checked myself it seems A1 is the effect allele in the output. Let me know what you think! Thanks. Its a pitty that it's not specified in the manual. |
More than welcome to submit a pull request. |
Hi!!
Rcently I applied plinkCoxSurv function to plink bed format for survival analysis and I have two questions:
1.In the output there are "A0","A1", and "HR" and so on. So was the HRs calculated taking reference A0 or A1?
2.In the example output impute_example.coxph, it seems that A0 is REF while A1 is ALT. But when I applied plinkCoxSurv, it seems the other way around. Then, is A0 or A1 the REF?
Thank you very much.
The text was updated successfully, but these errors were encountered: