SPREG is a computer program for performing regression analysis of secondary phenotype data in case-control association studies. Secondary phenotypes are quantitative or qualitative traits other than the case-control status. Because the case-control sample is not a random sample of the general population, standard statistical analysis of secondary phenotype data can yield very misleading results.
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Lin DY, Zeng D. 2009,
Proper analysis of secondary phenotype data in case-control association studies,
Genetic Epidemiology, 33:256-265.