paturley

Hi, I'm a bit confused by your question. In MTAG, N should correspond to the effective sample size. For quantitative traits analyzed with ordinary least squares, it would be total...

I believe the standard formula is 4*N_cases*N_controls/(N_cases + N_controls). This paper might be useful to you. https://www.nature.com/articles/ejhg2016150/ On Wed, Oct 7, 2020 at 8:39 PM FEIFEI502 wrote: > Hi, >...

This looks like you are getting an divide-by-zero error in a step where you are calculating 1 over the standard error squared. Are you sure that all of the SE...

Do you get the same error when you use the Z-N option rather than the beta-se option? On Mon, Nov 11, 2019 at 4:39 PM Kijoung Song wrote: > >...

Hi Shicheng, Apologies for how slow we've been at responding to this. We have been teaching an intensive two-week course, and I have let a few things slide. We will...

Hello, Looking at your question more closely, I think I actually understand what the problem is. We use the plink convention of referring to the reference allele as the effect...

I seem to recall an issue previously where the function sometimes mis-identifies which column is which when they are not specified and when there are extraneous columns in the file....

Ah. Glad you got it working. The tricky thing on our part is that MTAG relies heavily on the LD score regression code, and their code doesn't seem to support...

I don't know that there is a right answer to your question. The decreased mean chi2 and the high maxFDR is likely a consequence of having a moderate genetic correlation...

Hello, I'm surprised that you even got the maxFDR code to run for 4 traits. It can get quite slow even with 3. What options did you use for the...