R:如何阅读诺模图来预测所需的变量 | 如何阅读诺模图来预测所需的变量

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问题描述

我正在使用 Rstudio.我使用以下代码(从

此代码生成列线图，但没有连接每个标度(称为等值线)的线来帮助从图中预测所需变量(死亡风险").通常，列线图具有预测等值线(

I am using Rstudio. I have created nomograms using function nomogram from package rms using following code (copied from the example code of the documentation):

library(rms)
n <- 1000    # define sample size
set.seed(17) # so can reproduce the results
age            <- rnorm(n, 50, 10)
blood.pressure <- rnorm(n, 120, 15)
cholesterol    <- rnorm(n, 200, 25)
sex            <- factor(sample(c('female','male'), n,TRUE))


# Specify population model for log odds that Y=1
L <- .4*(sex=='male') + .045*(age-50) +
  (log(cholesterol - 10)-5.2)*(-2*(sex=='female') + 2*(sex=='male'))
# Simulate binary y to have Prob(y=1) = 1/[1+exp(-L)]
y <- ifelse(runif(n) < plogis(L), 1, 0)


ddist <- datadist(age, blood.pressure, cholesterol, sex)
options(datadist='ddist')


f <- lrm(y ~ lsp(age,50)+sex*rcs(cholesterol,4)+blood.pressure)
nom <- nomogram(f, fun=function(x)1/(1+exp(-x)),  # or fun=plogis
    fun.at=c(.001,.01,.05,seq(.1,.9,by=.1),.95,.99,.999),
    funlabel="Risk of Death")
#Instead of fun.at, could have specified fun.lp.at=logit of
#sequence above - faster and slightly more accurate
plot(nom, xfrac=.45)

Result:

This code produces a nomogram but there is no line connecting each scale (called isopleth) to help predict the desired variable ("Risk of Death") from the plot. Usually, nomograms have the isopleth for prediction (example from wikipedia). But here, how do I predict the variable value?

EDIT:

From the documentation:

I don't understand this. It seems that predicting is supposed to be done without the isopleth, from the scale of points. but how? Can someone please elaborate with this example on how I can read the nomograms to predict the desired variable? Thanks a lot!

EDIT 2 (FYI):

In the description of the bounty, I am talking about the isopleth. When starting the bounty, I did not know that nomogram function does not provide isopleth and has points scale instead.

解决方案

From the documentation, the nomogram is used to manualy obtain prediction:

In the top of the plot (over Total points)

you draw a vertical line for each of the variables of your patient (for example age=40, cholesterol=220 ( and sex=male ), blood.pressure=172)
then you sum up the three values you read on the Points scale (40+60+3=103) to obtain Total Points.
Finally you draw a vertical line on the Total Points scale (103) to read the Risk of death (0.55).

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