| prostate {genridge} | R Documentation |
Prostate Cancer Data
Description
Data to examine the correlation between the level of prostate-specific antigen and a number of clinical measures in men who were about to receive a radical prostatectomy.
Format
A data frame with 97 observations on the following 10 variables.
- lcavol
log cancer volume
- lweight
log prostate weight
- age
in years
- lbph
log of the amount of benign prostatic hyperplasia
- svi
seminal vesicle invasion
- lcp
log of capsular penetration
- gleason
a numeric vector
- pgg45
percent of Gleason score 4 or 5
- lpsa
response
- train
a logical vector
Details
This data set came originally from the (now defunct) ElemStatLearn package.
The last column indicates which 67 observations were used as the "training set" and which 30 as the test set, as described on page 48 in the book.
Note
There was an error in this dataset in earlier versions of the package, as indicated in a footnote on page 3 of the second edition of the book. As of version 2012.04-0 this was corrected.
Source
Stamey, T., Kabalin, J., McNeal, J., Johnstone, I., Freiha, F., Redwine, E. and Yang, N (1989) Prostate specific antigen in the diagnosis and treatment of adenocarcinoma of the prostate II. Radical prostatectomy treated patients, Journal of Urology, 16: 1076–1083.
Examples
data(prostate)
str( prostate )
cor( prostate[,1:8] )
prostate <- prostate[, -10]
prostate.mod <- lm(lpsa ~ ., data=prostate)
vif(prostate.mod)
py <- prostate[, "lpsa"]
pX <- data.matrix(prostate[, 1:8])
pridge <- ridge(py, pX, df=8:1)
pridge
plot(pridge)
pairs(pridge)
traceplot(pridge)
traceplot(pridge, X="df")