Question: Unknown error message in PLINK association analysis
1
gravatar for dam4l
3.2 years ago by
dam4l140
dam4l140 wrote:

I've encountered a novel error while running association analysis in PLINK. I input the following command:

./plink --bfile file_merged --pheno phenotype.txt --allow-no-sex --covar plink.mds --covar-name C1,C2,C3,C4,C5,C6,C7,C8,C9,C10 --out association_results --linear --adjust

I received the following error message:

Zero valid tests; --adjust skipped.

I have completed association analyses previously using the same command, so I am just wondering if anyone knows the source of the error.

Thanks!

snp plink gwas • 1.1k views
ADD COMMENTlink modified 2.5 years ago by logands20 • written 3.2 years ago by dam4l140

Could you print the whole log here or on pastebin.com?

It looks like plink skips all tests for some reason

ADD REPLYlink written 3.2 years ago by Philipp Bayer6.0k
2
gravatar for logands
2.5 years ago by
logands20
logands20 wrote:

Hello,

I ran into the same problem with a specific build of PLINK (v1.90b3c 64-bit (2 Feb 2015)) that was loaded on our computational cluster. However, the problem is resolved with a more current build (v1.90b3.32 64-bit (24 Feb 2016)). Just as an FYI, for anyone else who may run into this problem...just check the build.

Cheers, Logan

ADD COMMENTlink written 2.5 years ago by logands20
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