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使用R forestplot包,有没有办法为框指定可变颜色?

forestplot colors plot r

1

mshum · 技术社区 · 9 年前

作为示例,我将使用R forestplot vignette中的代码( https://cran.r-project.org/web/packages/forestplot/vignettes/forestplot.html ):

library(forestplot)
# Cochrane data from the 'rmeta'-package
cochrane_from_rmeta <- 
  structure(list(
    mean  = c(NA, NA, 0.578, 0.165, 0.246, 0.700, 0.348, 0.139, 1.017, NA, 0.531), 
    lower = c(NA, NA, 0.372, 0.018, 0.072, 0.333, 0.083, 0.016, 0.365, NA, 0.386),
    upper = c(NA, NA, 0.898, 1.517, 0.833, 1.474, 1.455, 1.209, 2.831, NA, 0.731)),
    .Names = c("mean", "lower", "upper"), 
    row.names = c(NA, -11L), 
    class = "data.frame")

tabletext<-cbind(
  c("", "Study", "Auckland", "Block", 
    "Doran", "Gamsu", "Morrison", "Papageorgiou", 
    "Tauesch", NA, "Summary"),
  c("Deaths", "(steroid)", "36", "1", 
    "4", "14", "3", "1", 
    "8", NA, NA),
  c("Deaths", "(placebo)", "60", "5", 
    "11", "20", "7", "7", 
    "10", NA, NA),
  c("", "OR", "0.58", "0.16", 
    "0.25", "0.70", "0.35", "0.14", 
    "1.02", NA, "0.53"))

forestplot(tabletext, 
       cochrane_from_rmeta,new_page = TRUE,
       is.summary=c(TRUE,TRUE,rep(FALSE,8),TRUE),
       clip=c(0.1,2.5), 
       xlog=TRUE, 
       col=fpColors(box="royalblue",line="darkblue", summary="royalblue"))

我不想让所有框都是相同的颜色,而是希望根据另一个变量的值给框上色。我修改了示例代码,在cochrane_from_rmeta中添加了另一列(“test”),并希望根据“test“的值给框上色。我想代码应该是这样的:

library(forestplot)
# Cochrane data from the 'rmeta'-package
cochrane_from_rmeta <- 
  structure(list(
    mean  = c(NA, NA, 0.578, 0.165, 0.246, 0.700, 0.348, 0.139, 1.017, NA, 0.531), 
    lower = c(NA, NA, 0.372, 0.018, 0.072, 0.333, 0.083, 0.016, 0.365, NA, 0.386),
    upper = c(NA, NA, 0.898, 1.517, 0.833, 1.474, 1.455, 1.209, 2.831, NA, 0.731)),
    test = c(NA,NA,1,3,1,7,4,9,6,NA,2)),
    .Names = c("mean", "lower", "upper", "test"), 
    row.names = c(NA, -11L), 
    class = "data.frame")

tabletext<-cbind(
  c("", "Study", "Auckland", "Block", 
    "Doran", "Gamsu", "Morrison", "Papageorgiou", 
    "Tauesch", NA, "Summary"),
  c("Deaths", "(steroid)", "36", "1", 
    "4", "14", "3", "1", 
    "8", NA, NA),
  c("Deaths", "(placebo)", "60", "5", 
    "11", "20", "7", "7", 
    "10", NA, NA),
  c("", "OR", "0.58", "0.16", 
    "0.25", "0.70", "0.35", "0.14", 
    "1.02", NA, "0.53"))

forestplot(tabletext, 
       cochrane_from_rmeta,new_page = TRUE,
       is.summary=c(TRUE,TRUE,rep(FALSE,8),TRUE),
       clip=c(0.1,2.5), 
       xlog=TRUE, 
       col=fpColors(box=cochrane_from_rmeta$test,line="darkblue", summary="royalblue"))

然而,这样做会使框消失。有没有一种方法可以根据“test”的值给方框上色,或者forestplot无法处理颜色矢量?

1 回复 | 直到 9 年前

1

3

Max Gordon 9 年前

可以使用您自己的自定义线条绘制功能:

library(forestplot)
# Cochrane data from the 'rmeta'-package
cochrane_from_rmeta <- 
  structure(list(
    mean  = c(NA, NA, 0.578, 0.165, 0.246, 0.700, 0.348, 0.139, 1.017, NA, 0.531), 
    lower = c(NA, NA, 0.372, 0.018, 0.072, 0.333, 0.083, 0.016, 0.365, NA, 0.386),
    upper = c(NA, NA, 0.898, 1.517, 0.833, 1.474, 1.455, 1.209, 2.831, NA, 0.731)),
    .Names = c("mean", "lower", "upper"), 
    row.names = c(NA, -11L), 
    class = "data.frame")

tabletext<-cbind(
  c("", "Study", "Auckland", "Block", 
    "Doran", "Gamsu", "Morrison", "Papageorgiou", 
    "Tauesch", NA, "Summary"),
  c("Deaths", "(steroid)", "36", "1", 
    "4", "14", "3", "1", 
    "8", NA, NA),
  c("Deaths", "(placebo)", "60", "5", 
    "11", "20", "7", "7", 
    "10", NA, NA),
  c("", "OR", "0.58", "0.16", 
    "0.25", "0.70", "0.35", "0.14", 
    "1.02", NA, "0.53"))

fn <- local({
  i = 0
  no_lines <- sum(!is.na(cochrane_from_rmeta$mean))
  b_clrs = colorRampPalette(colors=c("pink", "blue"))(no_lines)
  l_clrs = colorRampPalette(colors=c("blue", "pink"))(no_lines)

  function(..., clr.line, clr.marker){
    i <<- i + 1
    fpDrawNormalCI(..., clr.line = l_clrs[i], clr.marker = b_clrs[i])
  }
})
forestplot(tabletext, fn.ci_norm = fn,
           cochrane_from_rmeta,new_page = TRUE,
           is.summary=c(TRUE,TRUE,rep(FALSE,8),TRUE),
           clip=c(0.1,2.5), 
           xlog=TRUE, 
           col=fpColors(summary="royalblue"))

请注意,我没有使用测试列,这应该足以让您计算出其余部分。