What should input files look like?

Question

What should input files look like?

Closed this issue a year ago · 4 comments

A colleague is trying to use FastGWA-GLMM, but there is no documentation on what the covar/qcovar files should look like?

Answer 1 · 2023-08-11T16:21:01.000Z

Just realised that it probably follows Plink. but please explain this more in the docs.

Answer 2 · 2023-08-11T17:40:16.000Z

Hi,
The basic input format of the covar/qcovar for all modules in GCTA (including FastGWA) is actually posted here (https://yanglab.westlake.edu.cn/software/gcta/index.html#Inputandoutput, https://yanglab.westlake.edu.cn/software/gcta/index.html#GREMLanalysis). It is slightly different from Plink, so please be cautious about it.

Answer 3 · 2023-08-11T18:05:49.000Z

I can’t see anything about covar or qcovar on that page? On 11 Aug 2023, at 18:40, Longda ***@***.***> wrote: Hi, The basic input format of the covar/qcovar for all modules in GCTA (including FastGWA) is actually posted here (https://yanglab.westlake.edu.cn/software/gcta/index.html#Inputandoutput). It is slightly different from Plink, so please be cautious about it. —Reply to this email directly, view it on GitHub, or unsubscribe.You are receiving this because you authored the thread.Message ID: ***@***.***>

Answer 4 · 2023-08-11T18:08:08.000Z

Hi,
There are 2 links. The covar/qcovar is posted in the 2nd one.