使用 plot_model 根据随机效应改变数据点的颜色

Question

我想在混合效应模型中绘制响应变量和解释变量之一之间的回归，同时还显示数据点。为此，我使用函数 plot_model()。我还希望数据点根据随机效果具有不同的颜色或形状。我不想为随机效应的每个级别绘制不同的回归线。 plot_model 这可能吗？

这是数据：

dat <- data.frame(c(1, 1,  1,  1,  1,  1,  1,  4,  1,  2,  1,  2,  3,  1,  
                             5,  1,  2,  2,  1,  1,  2,  2,  4,  3,  5,  5,  4,  4,
                             8,  4, 13,  8,  6,  5,  6,  5, 4,  8,  6,  2,  3,  9, 7,
                             4,  8,  8, 10, 10,  3,  3), 
                           c(427.0, 110.0, 99.0, 450.0, 182.0,  34.0,  43.0, 105.0, 
                             22.0, 108.0,  85.0, 142.0, 81.0, 109.0,  89.0, 183.0, 
                             106.0, 19.3, 13.5,  36.0, 55.0, 36.0, 128.0,  38.2, 103.0, 
                             105.0,  91.0,  94.0, 106.0,  96.0, 108.0, 103.0, 122.0, 
                             103.0, 112.0, 190.0, 112.0, 77.0,  60.0, 148.0, 161.0, 
                             44.0, 188.0,  44.0,  88.0,  90.0, 124.0, 120.0, 212.0, 309.0),
                           c(32.3, 27.0, 26.7, 33.0, 28.4, 26.7, 28.0, 30.0, 26.5, 
                             28.4, 29.0, 30.4, 25.8, 26.4, 24.2, 28.6, 29.4, 27.7, 
                             25.5, 27.3, 27.4, 29.2, 21.5, 25.4, 27.8, 27.8, 30.2, 
                             30.2, 30.9, 30.0, 30.3, 31.5, 31.3, 31.1, 32.5, 32.0, 
                             32.2, 32.9, 32.9, 31.3, 32.3, 29.4, 31.5, 29.8, 26.7,
                             26.7, 29.9, 29.9, 32.1, 32.1),
                           c(7.73, 1.83, 2.97, 7.66, 1.80, 1.17, 0.66, 6.04, 1.72, 
                             1.25, 2.27, 1.65, 0.16, 0.16, 0.26, 0.11, 0.17, 0.15, 
                             0.20, 0.21, 0.15, 0.10, 1.83, 1.84, 7.67, 7.67, 5.81, 
                             5.81, 3.95, 3.45, 1.15, 3.07, 3.61, 3.35, 0.86, 2.20, 
                             4.31, 1.64, 1.14, 3.55, 4.81, 1.36, 1.94, 3.36, 3.30,
                             3.30, 2.66, 2.66, 6.55, 6.55),
                           c(94, 151, 111,  94,  87, 128, 126,  39, 130, 107,  93, 
                             110,  76, 309,  38,  19,  13, 113, 110, 108, 103,  30,
                             58, 151,  55,  55,  42, 42,  29,  37,  20,  20,  61, 
                             21,   3,   8,  28,  33,  32,  12,  38,  -7,  -5,  74,  
                             22,  22,  10,  10,  22, 22),
                           c("2005", "2005", "2005", "2005", "2005", "2005", "2005",
                             "2018", "2005", "2005", "2005", "2005", "2010", "2010",
                             "2010", "2010", "2010", "2010", "2010", "2010", "2010",
                             "2010", "2012", "2012", "2017", "2017", "2017", "2017",
                             "2017", "2017", "2017", "2017", "2017", "2017", "2018",
                             "2018", "2018", "2018", "2018", "2018", "2018", "2018",
                             "2018", "2018", "2018", "2018", "2018", "2018", "2018", 
                             "2018"))
colnames(dat) <- c("SpR", "Dep", "Sal", "Chla", "Ice", "Yr")

这是混合效果模型：

MEM <- lmer(formula = SpR ~ (1|Yr) +  
                Dep + Sal + Chla + Ice + 
                Dep*Ice, 
              data = dat)

这是我用来绘制 SpR 和 Dep 之间回归的代码：

MEMpld <- plot_model(MEM, 
                   type = "pred", 
                   pred.type = "fe", 
                   terms = c("Dep"), 
                   show.data = TRUE,
                   col = "black",
                   title = "",
                   jitter = 0.0002, 
                   dot.size = 3.5,
                   dot.alpha=1)

这是我从运行这段代码中得到的数字。我希望圆点根据年份有不同的颜色：

Answer 1

如果您在 plot_model() 调用中设置 show.data = FALSE，然后单独添加点，它似乎工作正常：

MEMpld + 
   geom_point(data=dat, aes(x=Dep, y=SpR, colour = Yr))  +      
   scale_colour_discrete(name = "Yr") + 
   guides(fill="none")

我不确定为什么这个图例看起来有点古怪；我试图关闭填充图例（我认为这是内部设置的），但它似乎没有达到我想要的效果。

使用 plot_model 根据随机效应改变数据点的颜色

Changing colour of data points according to random effect using plot_model

r

plot

lme4

mixed-models

random-effects