geneJAM-package | R Documentation |
A package implementing methods for clustering traits that share some genetic component via polygenic scores (PSs). It fits a sparse precision matrix of the PSs via graphical lasso. The regularisation path is computed for the lasso penalty rho at a grid of values for the regularisation parameter rho. A cross-validation method for tuning the penalty rho is provided.
The geneJAM package provides three categories of important functions: simple fit, cross-validation and plots.
The function geneJAM
clusters outcome components (traits) that share some feature (genetic component) via polygenic scores (PSs). It fits a sparse precision matrix via graphical lasso. The regularisation path is computed for the lasso penalty at a grid of values for the regularisation parameter rho. The clusters are used to specify the structure of the error covariance matrix of a GLS model and the feasible GLS estimator is used for estimating the unknown parameters in a linear regression model with a certain unknown degree of correlation between the residuals.
Ann-Sophie Buchardt asbu@sund.ku.dk
Maintainer: Ann-Sophie Buchardt
asbu@sund.ku.dk
glasso, glmnet
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