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jianyangqt / gcta

GCTA software
GNU General Public License v3.0
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What should input files look like? #54

Closed sanjaynagi closed 11 months ago

sanjaynagi commented 11 months ago

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

sanjaynagi commented 11 months ago

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

longmanz commented 11 months ago

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.

sanjaynagi commented 11 months ago

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.

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longmanz commented 11 months ago

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