limour/limour-blog.github.io @ 3ed496751516045820e5d63460672f6b334eb106

title: 【迁移】使用Bootstrap法计算自举置信区间 urlname: shi-yong-Bootstrap-fa-ji-suan-zi-ju-zhi-xin-qu-jian date: 2022-09-27 19:25:08

tags: Bootstrap

计算药物LD50用Bliss法最严谨，而改良寇氏法计算的结果误差也不大，因此做了一次改良寇氏法计算LD50的实验。最后需要计算一下结果的可信区间，于是来试试万能的Bootstrap法

安装包（这个例子用不上）

conda activate MICE
conda install -c conda-forge r-boot=1.3_28 -y

构造样本

组别	剂量 mg/kg	动物数	死亡数
1	110.8	10	0
2	147.7	10	0
3	196.9	10	5
4	262.5	10	8
5	350.0	10	10

data <- list(
    g1 = rep(0,10),
    g2 = rep(0,10),
    g3 = c(rep(0,5),rep(1,5)),
    g4 = c(rep(0,2),rep(1,8)),
    g5 = rep(1,10)
)

计算自举置信区间

定义统计量

ln <- log
ld50 <- function(data){
    g1 <- mean(sample(x = data$g1, size = 10, replace = T))
    g2 <- mean(sample(x = data$g2, size = 10, replace = T))
    g3 <- mean(sample(x = data$g3, size = 10, replace = T))
    g4 <- mean(sample(x = data$g4, size = 10, replace = T))
    g5 <- mean(sample(x = data$g5, size = 10, replace = T))
    sigma_p <- sum(g1, g2, g3, g4, g5)
    exp(ln(350) - ln(4/3)*(sigma_p - 0.5))
}

计算 the bootstrap percentile interval

set.seed(123)
res <- vector(mode = "list", length = 1000)
for (i in 1:1000){
    res[[i]] <- ld50(data)
}
res <- sort(unlist(res))
hist(res)
quantile(res,0.975)
quantile(res,0.025)

计算P值

f_Rbisect <- function(lst, value){
    low=1
    high=length(lst)
    if(high == low){return(1)}
    mid=length(lst)%/%2
    if(lst[low] == value & value == lst[low + 1]){
        return(low + 0.5)
    }
    if(lst[high] == value & value == lst[high - 1]){
        return(high - 0.5)
    }
    if (lst[low] >= value){return(low)}
    if (lst[high] <= value){return(high)}
    while (lst[mid] != value) {
        if (value > lst[mid]){
            low  <-  mid + 1
        }else{
            high  <-  mid - 1
        }
        if (high <= low) { break }
        mid  <-  (low+high)%/%2
    }
    while(T){
        mid0 <- mid - 1
        mid2 <- mid + 1
        if(lst[mid0] == lst[mid2]){
            return(mid)
        }
        if(lst[mid0] <= value & value <=lst[mid]){
            if(lst[mid0] == lst[mid]){
                return(mid - 0.5)
            }
            t = (value - lst[mid0])/(lst[mid] - lst[mid0])
            return(mid0 + t)
        }
        if(lst[mid] <= value & value <= lst[mid2]){
            if(lst[mid] == lst[mid2]){
                return(mid + 0.5)
            }
            t = (value - lst[mid])/(lst[mid2] - lst[mid])
            return(mid + t)
        }
        if(value < lst[mid0]){
            mid  <- mid0
        }else{
            mid  <- mid2
        }
    }
}

f_Rbisect(res, exp(ln(350) - ln(4/3)*(0+0+0.5+0.8+1 - 0.5)))/1000

2022-09-27-【迁移】使用Bootstrap法计算自举置信区间.md 3.1 KB 文件歷史 原始文件