abcrf (version 1.2)

plot.abcrf: Plot of an ABC-RF object

Description

plot.abcrf gives both variable importance plot of a model choice ABC-RF object and the projection of the reference table on the LDA axes.

Usage

## S3 method for class 'abcrf':
plot(x, obs=NULL, n.var=20, main="", pdf=FALSE,...)

Arguments

x

an abcrf object.

obs

a vector containing the summary statistics of an observed data set that will be added to the graph of the projected reference table (black star or vertical line).

n.var

number of variables in the variable importance representation.

main

title of the importance variables plot.

pdf

a boolean that indicates if a pdf version of the graph(s) should be saved in the current directory.

...

additional arguments to be passed on to varImpPlot.

References

Pudlo, P., Marin, J.-M., Estoup, A., Cornuet, J.-M., Gautier, M. & Robert, C. P. (2015). Reliable ABC model choice via random forests. Bioinformatics. http://bioinformatics.oxfordjournals.org/content/early/2015/12/23/bioinformatics.btv684

See Also

abcrf, predict.abcrf, err.abcrf, varImpPlot

Examples

data(snp)
modindex <- snp[1:500, 1]
sumsta <- snp[1:500, -1]
model.rf <- abcrf(modindex, sumsta, ntree=100)
plot(model.rf)
data(snp.obs)
plot(model.rf, snp.obs[1,])