Reference

Model fitting
ncvfit()	Direct interface for nonconvex penalized regression (non-pathwise)
ncvreg()	Fit an MCP- or SCAD-penalized regression path
ncvsurv()	Fit an MCP- or SCAD-penalized survival model
std()	Standardizes a design matrix
Cross-validation
cv.ncvreg() cv.ncvsurv()	Cross-validation for ncvreg/ncvsurv
plot(<cv.ncvreg>)	Plots the cross-validation curve from a cv.ncvreg object
summary(<cv.ncvreg>) print(<summary.cv.ncvreg>)	Summarizing cross-validation-based inference
AUC(<cv.ncvsurv>)	AUC for cv.ncvsurv objects
Plotting and extracting model features
logLik(<ncvreg>) logLik(<ncvsurv>)	Extract Log-Likelihood
predict(<cv.ncvreg>) coef(<cv.ncvreg>) predict(<cv.ncvsurv>) predict(<ncvreg>) coef(<ncvreg>)	Model predictions based on a fitted ncvreg object.
predict(<ncvsurv>)	Model predictions based on a fitted ncvsurv object.
plot(<ncvreg>)	Plot coefficients from a ncvreg object
plot(<ncvsurv.func>)	Plot survival curve for ncvsurv model
residuals(<ncvreg>)	Extract residuals from a ncvreg or ncvsurv fit
Inference
local_mfdr()	Estimate local mFDR for all features
mfdr()	Marginal false discovery rates
plot(<mfdr>)	Plot marginal false discovery rate curves
perm.ncvreg()	Permutation fitting for ncvreg
permres()	Permute residuals for a fitted ncvreg model
summary(<ncvreg>) print(<summary.ncvreg>)	Summary method for ncvreg objects
Data sets
Heart	Risk factors associated with heart disease
Lung	VA lung cancer data set
Prostate	Factors associated with prostate specific antigen