Description Usage Arguments Author(s) References Examples
Create an HTML page that summarizes all the plots that have been created to visualize the risk prediction. When a patient was given, a patient summary will be given as well. This function is only applicable for multinom
objects.
1 | HTMLsummary(fit, summaryfile, filename, title)
|
fit |
A |
summaryfile |
Name of the resulting HTML file |
filename |
The filename that was given to the |
title |
Title of the summary. |
Vanya Van Belle
Van Belle V., Van Huffel S., Timmerman D., Froyman W., Bourne T. and Van Calster B., A color based nomogram for Multinomial Logistic Regression, Internal Report 16-28, ESAT-Stadius, KU Leuven (Leuven, Belgium), 2016
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 | # only applicable for multinom objects
library(nnet)
library(R2HTML)
library(VGAMdata)
data(xs.nz)
marital.nz <- xs.nz[,c("marital","sex","age","height","weight")]
mydata <- marital.nz[complete.cases(marital.nz),]
fit <- multinom(marital ~ sex + age + height + weight, data = mydata,model=TRUE)
# for multinimial logistic regression, a vector of risk labels needs to be made
# and provided to the colplot function
outnames=colnames(fitted(fit))
labels=c(paste("Linear predictor for",outnames[-1]),paste
("Predicted chance of being",outnames))
patient1=data.frame(sex="F",age=27,height=1.68,weight=58.6)
colplot(fit,coloroptions=3,risklabel=labels,filename="multinom")
# this generates a file mysummary.html containing all plots provided by the above
# colplot statement.
HTMLsummary(fit=fit, summaryfile="mysummary", filename="multinom",
title="Global summary of a multinomial logistic regression model estimating
the risk on different marital statuses.")
# this generates a file mysummary1.html containing all plots provided by the below
# colplot statement. Since an observation is provided, a patient summary will also
# be given.
colplot(fit,obs=patient1,coloroptions=3,risklabel=labels,filename="multinom")
HTMLsummary(fit=fit, summaryfile="mysummary1", filename="multinom",
title="Global summary of a multinomial logistic regression model estimating
the risk on different marital statuses.")
|
# weights: 24 (15 variable)
initial value 14432.710594
iter 10 value 8525.795542
iter 20 value 6910.609663
final value 6874.318316
converged
More than one figure will be created within the directory /work/tmp
Writing to file mysummary.html
Processing code chunks ...
file mysummary.html is completed
More than one figure will be created within the directory /work/tmp
Writing to file mysummary1.html
Processing code chunks ...
file mysummary1.html is completed
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