Question

Does Anyone Have Suggestions For Statistical Analysis Of Unrelated Individuals ?

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Entering edit mode

10.5 years ago

mastoorehg • 0

Hi all

Does anyone have suggestions For statistical analysis of unrelated individuals ? I‘m new in field. (I have a dataset include genotype file (50000 SNP),& phenotype file (8 metabolic trait).as see ,there is no pedigree file.) Can someone help me? thanks

gwas • 1.5k views

ADD COMMENT • link updated 10.5 years ago by Sean Davis 26k • written 10.5 years ago by mastoorehg • 0

score 1 · Answer 1 · 2013-10-13

As you noted in the tag for your question, it sounds like you are dealing with a GWAS dataset. There are multiple statistical tests available, and which to use will depend on the question you are asking and the data available. In particular, some tests will be appropriate for binary traits, others with multifactor traits, and yet others for continuous traits. A reasonable place to start might be with the plink section on association testing:

http://pngu.mgh.harvard.edu/~purcell/plink/anal.shtml

Also, there are _many_ slide decks and review papers on performing GWAS. If you are new to the field, I'd suggest finding a friendly genetic epidemiologist to work with you on the dataset to look at details of the dataset including population stratification, potential for imputation, and what questions are best to be asking.