compute_seb_proj_var
compute_seb_proj_var.Rd
analytically compute the variance of a projection given a standard error of beta for a given trait
compute_seb_proj_var
compute_seb_proj_var(gwas.DT, shrink.DT, man.DT, w.DT, ref_gt_dir, method = "shrinkage", quiet = FALSE)
gwas.DT | a data.table - variants and summary statistics |
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shrink.DT | a data.table - as returned by |
man.DT | a data.table - snp manifest file that maps snps to ld.block |
w.DT | a data.table - a data table of weights/rotations from a basis first column is 'pid' and subsequent columns for each principal component. |
ref_gt_dir | scalar - path to a dir of R objects named CHR_1kg.RData containing reference GT in snpMatrix format |
method | scalar - shrinkage method to use (default shrinkage) but also valid is none |
quiet | a scalar - boolean whether to show progress messages |
a scalar of variances for each principal component