Penalized Variance Components Analysis

Method to perform penalized variance component analysis.

The vcpen Package

Penalized Variance Component analysis is performed by the vcpen function. The calculations do..Dan please edit...

The vcpen() Function

vcpen() is a function that performs penalized model fitting of variance components. The variance components are pre-calculated matrices of similarity between subjects, including residual error matrix.

The kernel_linear() Function

kernel_linear() calculates a kernel matrix of genomic similarity from SNP dosage, where the rows are subjects, and columns are the minor allele dosage (0/1/2), assuming bi-allelic SNPs.