R: Plot an SurvCART or LongCART Object

plot {LongCART}

R Documentation

Plot an SurvCART or LongCART Object

Description

Plots an SurvCART or LongCART object on the current graphics device.

Usage

## S3 method for class 'SurvCART'
plot(x, uniform = FALSE, branch = 1, compress = FALSE, 
              nspace = branch, margin = 0, minbranch = 0.3, ...)
## S3 method for class 'LongCART'
plot(x, uniform = FALSE, branch = 1, compress = FALSE, 
              nspace = branch, margin = 0, minbranch = 0.3, ...)

Arguments

`x`	a fitted object of class `"SurvCART"`, containing a survival tree or `"LongCART"`, containing a longitudinal tree.
`uniform`	similar to `plot.rpart`; if TRUE, uniform vertical spacing of the nodes is used; this may be less cluttered when fitting a large plot onto a page. The default is to use a non-uniform spacing proportional to the error in the fit.
`branch`	similar to `plot.rpart`; controls the shape of the branches from parent to child node. Any number from 0 to 1 is allowed. A value of 1 gives square shouldered branches, a value of 0 give V shaped branches, with other values being intermediate.
`compress`	similar to `plot.rpart`; if `FALSE`, the leaf nodes will be at the horizontal plot coordinates of `1:nleaves`. If `TRUE`, the routine attempts a more compact arrangement of the tree.
`nspace`	similar to `plot.rpart`; the amount of extra space between a node with children and a leaf, as compared to the minimal space between leaves. Applies to compressed trees only. The default is the value of `branch`.
`margin`	similar to `plot.rpart`; an extra fraction of white space to leave around the borders of the tree. (Long labels sometimes get cut off by the default computation).
`minbranch`	similar to `plot.rpart`; set the minimum length for a branch to `minbranch` times the average branch length. This parameter is ignored if `uniform=TRUE`. Sometimes a split will give very little improvement, or even (in the classification case) no improvement at all. A tree with branch lengths strictly proportional to improvement leaves no room to squeeze in node labels.
`...`	arguments to be passed to or from other methods.

Details

This function is a method for the generic function plot, for objects of class SurvCART. The y-coordinate of the top node of the tree will always be 1.

Value

The coordinates of the nodes are returned as a list, with components x and y.

Author(s)

Madan Gopal Kundu madan_g.kundu@yahoo.com

References

Kundu, M. G., and Harezlak, J. (2019). Regression trees for longitudinal data with baseline covariates. Biostatistics & Epidemiology, 3(1):1-22.

Kundu, M. G., and Ghosh, S. (2021). Survival trees based on heterogeneity in time-to-event and censoring distributions using parameter instability test. Statistical Analysis and Data Mining: The ASA Data Science Journal, 14(5), 466-483.

Examples



#--- Get the data
data(GBSG2)

#numeric coding of character variables
GBSG2$horTh1<- as.numeric(GBSG2$horTh)
GBSG2$tgrade1<- as.numeric(GBSG2$tgrade)
GBSG2$menostat1<- as.numeric(GBSG2$menostat)

#Add subject id
GBSG2$subjid<- 1:nrow(GBSG2)

#--- Run SurvCART()
out<- SurvCART(data=GBSG2, patid="subjid", censorvar="cens", timevar="time", event.ind=1, 
        gvars=c('horTh1', 'age', 'menostat1', 'tsize', 'tgrade1', 'pnodes', 'progrec', 'estrec'),  
        tgvars=c(0,1,0,1,0,1, 1,1),          
        alpha=0.05, minsplit=80,  
        minbucket=40, print=TRUE)

#--- Plot tree
par(xpd = TRUE)
plot(out, compress = TRUE)
text(out, use.n = TRUE)

[Package LongCART version 3.2 Index]