Question: Quantitative trait Association analysis of Animal genetic data
gravatar for deepue
3.7 years ago by
deepue110 wrote:


I have phenotype(pheno.txt) and genotype(, data.ped) data of Shoebill. I would like to see if any marker is associated with the phenotype beak length. Also, to identify how much phenotype variance is being explained by the top markers. I have issues in using PLINK as it is not allowing the chromosomes numbers greater than 24. How to achieve this ? Is there any other program which can help in doing ?


snp association animal • 1.1k views
ADD COMMENTlink modified 3.7 years ago • written 3.7 years ago by deepue110

You have to use --autosome-num flag followed by the chromosome number. Example --autosome-num 32

ADD REPLYlink written 3.0 years ago by akang90
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