TRAP (Tiled Regression Analysis Package) is a software framework for selecting a set of genetic predictors which jointly explain trait variation with an additive regression model.. It is a package of R functions implementing the Tiled Regression analysis method.Tiled Regression (Wilson et al., 2009) is an approach to determining a regression model of trait variation when the number of possible genetic predictors is very large. It focuses initially on moderate-sized segments of the genome called “tiles” and discards those showing no evidence of significant effect on the trait. Within the more promising tiles, stepwise regression is used to select a subset of predictors that independently contribute to trait variation. Predictors that are not discarded are then combined across tiles for selection within chromosome, and then across the genome. Quantitative traits are modeled with linear regression, and binary traits are modeled with logistic regression, in each case considering only additive effects. Family relationships are handled with generalized estimating equations (GEE).
- R Package
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Wilson AF, Kim Y, Sung H, Cai J, McMahon FJ, Sorant AJM,
Tiled regression: the use of regression methods in hotspot defined genomic segments to identify independent genetic variants responsible for variation in quantitative traits.
International Genetic Epidemiology Society, 18th Annual Meeting, 2009, Abstract 142