Description Usage Arguments Details Value See Also Examples
Plot the cross-validation curve from a cv.PCLasso2
object, along with standard error bars.
1 2 |
x |
Fitted |
type |
What to plot on the vertical axis. "cve" plots the cross-validation error (deviance); "rsq" plots an estimate of the fraction of the deviance explained by the model (R-squared); "snr" plots an estimate of the signal-to-noise ratio; "all" produces all of the above. |
norm |
If TRUE, plot the norm of each group, rather than the individual coefficients. |
... |
Other graphical parameters to |
Error bars representing approximate +/- 1 SE (68% confidence
intervals) are plotted along with the estimates at value of lambda. See
plot.cv.grpreg
in the R package grpreg
for details.
No return value, called for plotting of cv.PCLasso2
objects.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 | # load data
data(classData)
data(PCGroups)
x = classData$Exp
y = classData$Label
PC.Human <- getPCGroups(Groups = PCGroups, Organism = "Human",
Type = "GeneSymbol")
# fit model
cv.fit1 <- cv.PCLasso2(x, y, group = PC.Human, penalty = "grLasso",
family = "binomial", nfolds = 10)
# plot the norm of each group
plot(cv.fit1, norm = TRUE)
# plot the individual coefficients
plot(cv.fit1, norm = FALSE)
# plot the cross-validation error (deviance)
plot(cv.fit1, type = "cve")
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