Question: Interpretation of assoc.logistic in plink
0
gravatar for khn
11 months ago by
khn110
khn110 wrote:

Hello,

I have just conducted a logistic conditional analysis by plink. The file shows two lines for a SNP. How to interpret this?

Code:

--allow-no-sex
--bfile  
--condition rs3456
--dominant
--logistic
--out ***_rs3456

CHR SNP BP A1 TEST NMISS OR STAT P
1       rs1234  12345 C DOM 2000 1.03 0.1973 0.8436
1       rs1234  12345 C rs3456 2000 0.3986  -5.396 6e-08

As I wanted to do this analysis by --dominant, the p-value for this analysis should be 0.8436 as above?

Also, if allelic/dom/rec models are all "NA", is it OK just to ignore those SNPs?

Thank you in advance!

snp plink genome • 546 views
ADD COMMENTlink modified 11 months ago by zx87548.0k • written 11 months ago by khn110

Please edit the post and add logical tags. If this is a question about plink why did you use R tag?

ADD REPLYlink written 11 months ago by genomax70k

Combined my questions above

ADD REPLYlink modified 11 months ago • written 11 months ago by khn110

Do not add answers unless you're answering the top level question. This content should be added to the top level post by editing it. See: How do I edit my post?

ADD REPLYlink written 11 months ago by RamRS23k
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