R Graphical Manual

Last data update: 2014.03.03

R: Creates a trace plot for the LD LASSO

trace.plot

R Documentation

Creates a trace plot for the LD LASSO

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

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

`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

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.