ldlasso (version 3.2)

trace.plot: Creates a trace plot for the LD LASSO

Description

This function creates a trace plot as a function of s2, the LD LASSO constraint

Usage

trace.plot(beta0.mat, s2.vec, type = "l", indx = NA, s2star = NA, abs = TRUE)

Arguments

beta0.mat

A matrix where rows are ld lasso estimates. This matrix has number of rows equal to length(s2.vec) and number of columns equal to the number of SNPs

s2.vec

The vector of s2 values used to generate the rows of beta0.mat

type

Type of plot, "l" for lines, "p" for points

indx

If index is NA then indx, is a vector of SNP indices to be plotted in red.

s2star

Value of s2star from cp object. If s2star is not NA, a vertical line is plotted at this value.

abs

A logical variable indicating whether to plot absolute value of beta instead of beta

Value

Creates a trace plot.

Details

In this trace plot each line represents a SNP estimate and we see the behavior of the solution as the LD LASSO constraint is varied.