Calibrate curve for binary logistic model but all the parameters list in the warnings
All the parameters list in the warnings was also list in the introduction of the rms packages, which also played an important role in getting a adjustment for the plot. So I wonder to know there is any mistake when i do the calculate. And some one encounter the same problem.
Could you share your method to solve the problem.
Thanks very much.
library(rms)
f1 <- lrm(Recurrence_1_year~AFP_Categ_200+Tumor_Diameter_Categ+Macro_Tumor_Thrombus,
data = Training_nom,
x=TRUE,
y=TRUE)
cal <- calibrate(f1, group=Recurrence_1_year)
plot(cal,
subtitles=FALSE,
conf.int=TRUE,
cex.subtitles=.75,
riskdist=FALSE,
add=FALSE,
scat1d.opts=list(nhistSpike=1000),
par.corrected=list(col="red",lty=4,lwd=4))
1: In plot.window(...) : "conf.int" not graphic paremeters
2: In plot.window(...) : "cex.subtitles"not graphic paremeters
3: In plot.window(...) : "riskdist"not graphic paremeters
4: In plot.window(...) : "add"not graphic paremeters
5: In plot.window(...) : "par.corrected"not graphic paremeters
6: In plot.xy(xy, type, ...) : "conf.int"not graphic paremeters
7: In plot.xy(xy, type, ...) : "cex.subtitles"not graphic paremeters
8: In plot.xy(xy, type, ...) : "riskdist"not graphic paremeters
9: In plot.xy(xy, type, ...) : "add"not graphic paremeters
10: In plot.xy(xy, type, ...) : "par.corrected"not graphic paremeters
11: In axis(side = side, at = at, labels = labels, ...) : "conf.int"not graphic paremeters
12: In axis(side = side, at = at, labels = labels, ...) : "cex.subtitles"not graphic paremeters
13: In axis(side = side, at = at, labels = labels, ...) : "riskdist"not graphic paremeters
14: In axis(side = side, at = at, labels = labels, ...) : "add"not graphic paremeters
15: In axis(side = side, at = at, labels = labels, ...) : "par.corrected"not graphic paremeters
16: In axis(side = side, at = at, labels = labels, ...) : "conf.int"not graphic paremeters
17: In axis(side = side, at = at, labels = labels, ...) : "cex.subtitles"not graphic paremeters
18: In axis(side = side, at = at, labels = labels, ...) : "riskdist"not graphic paremeters
19: In axis(side = side, at = at, labels = labels, ...) : "add"not graphic paremeters
20: In axis(side = side, at = at, labels = labels, ...) : "par.corrected"not graphic paremeters
21: In box(...) : "conf.int"not graphic paremeters
22: In box(...) : "cex.subtitles"not graphic paremeters
23: In box(...) : "riskdist"not graphic paremeters
24: In box(...) : "add"not graphic paremeters
25: In box(...) : "par.corrected"not graphic paremeters
26: In title(...) : "conf.int"not graphic paremeters
27: In title(...) : "cex.subtitles"not graphic paremeters
28: In title(...) : "riskdist"not graphic paremeters
29: In title(...) : "add"not graphic paremeters
30: In title(...) : "par.corrected"not graphic paremeters
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The error msg is clear: plot does not take arguments like
conf.int,riskdistetc. See plot argument listhttps://www.rdocumentation.org/packages/graphics/versions/3.5.1/topics/plot
See also
par()as most of the graphica arguments that plot takes comes frompar()https://www.rdocumentation.org/packages/graphics/versions/3.5.1/topics/par