Jonathan Jala

So that filter checks to make sure that the major/minor allele pairs are consistent across phenotypes. It looks like phenotype 1 is used as the reference / ground truth there,...

The log file would help, though that error seems a little weird. How are you trying to run MTAG? It looks like you maybe have the mtag.py file sitting in...

I would guess that somehow something with a frequency of 0.0 or 1.0 is getting through the filters, since line 588 runs fine but an error is thrown on line...

(or perhaps it's a NaN in the frequency column, might want to check for those, as well)

Hi, would you mind including what your MTAG command line looked like? (it will make it easier to dig into the flow of what's going on if we've got the...

Judging from stackoverflow, it looks like the most common cause of this is duplicate index values. Do you have duplicate rsIDs in your data? MTAG does do some filtering and...

The latest commit (as of today) has a change that should allow the whole summary table to print. If you try that out, let us know? (if you have any...

It looks like you're using a version that's a few years old...have you tried running against the latest?

It looks like it should be dropping them (see here ). Could you share your log file so we could see what lines you mean? On Thu, May 12, 2022...

It looks like it's having trouble finding the Z column that it's expecting (" 2022/08/02/12:44:22 PM MTAG will use the Z column for analyses.") On Wed, Aug 3, 2022 at...