在R中可视化比值比的简单方法

Question

我需要帮助来创建一个简单的情节来为我老板的演示文稿显示比值比 - 这是我的第一篇文章.我是一个真正的R初学者,我似乎无法让这个工作.我尝试调整我在网上找到的一些显然产生的代码:

我想手动输入我的OR和CI,因为这更直接,所以这就是我所拥有的:

# Create labels for plot
boxLabels = c("Package recommendation", "Breeder’s recommendations", "Vet’s 
recommendation", "Measuring cup", "Weigh on scales", "Certain number of 
cans", "Ad lib feeding", "Adjusted for body weight")

# Enter OR and CI data. boxOdds are the odds ratios, 
boxCILow is the lower bound of the CI, boxCIHigh is the upper bound.

df <- data.frame(yAxis = length(boxLabels):1, boxOdds = c(0.9410685, 
0.6121181, 1.1232907, 1.2222137, 0.4712629, 0.9376822, 1.0010816, 
0.7121452), boxCILow = c(-0.1789719, -0.8468693,-0.00109809, 0.09021224, 
-1.0183040, -0.2014975, -0.1001832,-0.4695449), boxCIHigh = c(0.05633076, 
-0.1566818, 0.2326694, 0.3104405, -0.4999281, 0.07093752, 0.1018351, 
-0.2113544))

# Plot
p <- ggplot(df, aes(x = boxOdds, y = boxLabels)) 

p + geom_vline(aes(xintercept = 1), size = .25, linetype = "dashed") +
geom_errorbarh(aes(xmax = boxCIHigh, xmin = boxCILow), size = .5, height = 
.2, color = "gray50") +
 geom_point(size = 3.5, color = "orange") +
 theme_bw() +
 theme(panel.grid.minor = element_blank()) +
 scale_y_discrete (breaks = yAxis, labels = boxLabels) +
 scale_x_continuous(breaks = seq(0,5,1) ) +
 coord_trans(x = "log10") +
 ylab("") +
 xlab("Odds ratio (log scale)") +
 annotate(geom = "text", y =1.1, x = 3.5, label ="Model p < 0.001\nPseudo 
 R^2 = 0.10", size = 3.5, hjust = 0) + ggtitle("Feeding method and risk of 
 obesity in cats")

毫不奇怪,它不起作用!任何建议非常感谢,因为它正在我的头!谢谢:)

NB.我尝试了我的CI的指数,我现在得到了这个:

它看起来更正确吗？将x轴标记为对数刻度是否仍然正确？对不起,我有点困惑!

Answer 1

您的置信区间在对数上,因此您需要对它们进行转换以匹配比值比 - 因此您可以使用exp函数.虽然考虑一下 - 使用对数刻度轴绘制这些数据有效地逆转了您对变换所做的工作.因此,如果是我,我会将所有内容保存在我的数据中,并使用coord_trans()和scale_x_continuous()来完成转换数据的工作:

df <- data.frame(yAxis = length(boxLabels):1, 
                 boxOdds = log(c(0.9410685, 
                   0.6121181, 1.1232907, 1.2222137, 0.4712629, 0.9376822, 1.0010816, 
                   0.7121452)), 
                  boxCILow = c(-0.1789719, -0.8468693,-0.00109809, 0.09021224,
                               -1.0183040, -0.2014975, -0.1001832,-0.4695449), 
                 boxCIHigh = c(0.05633076, -0.1566818, 0.2326694, 0.3104405, 
                               -0.4999281, 0.07093752, 0.1018351, -0.2113544)
                 )


(p <- ggplot(df, aes(x = boxOdds, y = boxLabels)) + 
    geom_vline(aes(xintercept = 0), size = .25, linetype = "dashed") + 
    geom_errorbarh(aes(xmax = boxCIHigh, xmin = boxCILow), size = .5, height = 
                    .2, color = "gray50") +
    geom_point(size = 3.5, color = "orange") +
    coord_trans(x = scales:::exp_trans(10)) +
    scale_x_continuous(breaks = log10(seq(0.1, 2.5, 0.1)), labels = seq(0.1, 2.5, 0.1),
                       limits = log10(c(0.09,2.5))) +
    theme_bw()+
    theme(panel.grid.minor = element_blank()) +
    ylab("") +
    xlab("Odds ratio") +
    annotate(geom = "text", y =1.1, x = log10(1.5), 
                     label = "Model p < 0.001\nPseudo R^2 = 0.10", size = 3.5, hjust = 0) + 
    ggtitle("Feeding method and risk of obesity in cats")
) 

你应该得到: