Question

library(lme4)

dummy <- as.data.frame(cbind(speed = rpois(100, 10), pop = rep(1:4, each = 25), season = rep(1:2, each = 50), id = seq(1, 100, by = 1)))
dummy2 <- as.data.frame(cbind(speed = c(rnbinom(50, 10, 0.6), rnbinom(50, 10, 0.1)), pop = rep(1:4, each = 25), season = rep(1:2, each = 50), id = seq(1, 100, by = 1)))

poisson <- glmer(speed~pop*season + (1|id),
             data=dummy, family="poisson")
neg.bin <- glmer.nb(speed ~ pop*season + (1|id),
                data=dummy2, control=glmerControl(optimizer="bobyqa"))

当我在使用lme4包的负二项式模型之前运行创建泊松模型的脚本时，运行neg.bin模型时出现以下错误：

Error in family$family : $ operator not defined for this S4 class

但是，如果我以相反的顺序运行模型，我不会出现错误消息。

library(lme4)
dummy <- as.data.frame(cbind(speed = rpois(100, 10), pop = rep(1:4, each = 25), season = rep(1:2, each = 50), id = seq(1, 100, by = 1)))
dummy2 <- as.data.frame(cbind(speed = c(rnbinom(50, 10, 0.6), rnbinom(50, 10, 0.1)), pop = rep(1:4, each = 25), season = rep(1:2, each = 50), id = seq(1, 100, by = 1)))
neg.bin <- glmer.nb(speed ~ pop*season + (1|id),
                data=dummy2, control=glmerControl(optimizer="bobyqa"))
poisson <- glmer(speed~pop*season + (1|id),
             data=dummy, family="poisson")

neg.bin模型示例确实有收敛警告，但是我的实际模型正在发生相同的模式正在收敛。如何运行泊松模型首先影响neg.bin模型？

Answer 1

因为你屏蔽了R函数poisson。以下方法可以正常工作（除了neg.bin收敛警告）：

library(lme4)
set.seed(0)
dummy <- as.data.frame(cbind(speed = rpois(100, 10), pop = rep(1:4, each = 25), season = rep(1:2, each = 50), id = seq(1, 100, by = 1)))
dummy2 <- as.data.frame(cbind(speed = c(rnbinom(50, 10, 0.6), rnbinom(50, 10, 0.1)), pop = rep(1:4, each = 25), season = rep(1:2, each = 50), id = seq(1, 100, by = 1)))

## use a different name for your model, say `poisson_fit`
poisson_fit <- glmer(speed~pop*season + (1|id),
         data=dummy, family="poisson")

negbin_fit <- glmer.nb(speed ~ pop*season + (1|id),
            data=dummy2, control=glmerControl(optimizer="bobyqa"))

这是问题所在。在glmer.nb的前几行中有一行：

mc$family <- quote(poisson)

因此，如果您屏蔽poisson，则无法找到poisson包中的正确函数stats。

Ben刚刚解决了这个问题，将其替换为：

mc$family <- quote(stats::poisson)

我对family = "poisson"和match.fun内容的原始观察不是真正的问题。它只解释了为什么在glm和mgcv::gam这样的例程中，传递family字符串是合法的。

lme4 :: glmer.nb函数产生“$ family系列中的错误：$ S4未定义此类的运算符”，具体取决于我运行模型的顺序

1 个答案: