UpSetR包绘制多维的venn图
UpSetR包绘制多维的venn图
R 语言中的维恩图绘制有很多包，Vennerable（最多9维），VennDigram（最多5维），venn（最多7维），而UpSetR绘制的维恩图则更多，只是表现形式和其他图不太一样。示例代码不一样：
#devtools::install_github("hms-dbmi/UpSetR") library(UpSetR) A <-sample(1:1000, 400, replace = FALSE); B <-sample(1:1000, 600, replace = FALSE); C <-sample(1:1000, 350, replace = FALSE); D <-sample(1:1000, 550, replace = FALSE); E <-sample(1:1000, 375, replace = FALSE); G <-sample(1:1000, 200, replace = FALSE); H <-sample(1:1000, 777, replace = FALSE); dataForUpSetPlot <-list(A=A, B=B, C=C, D=D, E=E, G=G, H=H) setsBarColors <-c('#EA4335', '#FBBC05', '#34A853', '#4285F4') ### sort by degree upset(fromList(dataForUpSetPlot), nsets=length(dataForUpSetPlot), nintersects = 1000, sets = c("A", "B", "C", 'D'), #keep.order = TRUE, point.size = 3, line.size = 1, number.angles = 0, text.scale = c(1.5, 1.2, 1.2, 1, 1.5, 1), # ytitle, ylabel, xtitle, xlabel, sets, number order.by="degree", matrix.color="black", main.bar.color = 'black', mainbar.y.label = 'Intersection Size', sets.bar.color=setsBarColors, queries = list(list(query = intersects, params = list('A','B','C'), color = "orange", active = T)))
### sort by frequency of intersection upset(fromList(dataForUpSetPlot), nsets=length(dataForUpSetPlot), nintersects = 1000, sets = c("A", "B", "C", 'D'), #keep.order = TRUE, point.size = 3, line.size = 1, number.angles = 0, text.scale = c(1.5, 1.2, 1.2, 1, 1.5, 1), # ytitle, ylabel, xtitle, xlabel, sets, number order.by="freq", matrix.color="black", main.bar.color = 'black', mainbar.y.label = 'Intersection Size', sets.bar.color=setsBarColors)
### sort by degree, then frequency, keep order upset(fromList(dataForUpSetPlot), nsets=length(dataForUpSetPlot), nintersects = 1000, sets = c("A", "B", "C", 'D'), keep.order = TRUE, point.size = 3, line.size = 1, number.angles = 0, text.scale = c(1.5, 1.2, 1.2, 1, 1.5, 1), # ytitle, ylabel, xtitle, xlabel, sets, number #order.by="degree", matrix.color="black", main.bar.color = 'black', mainbar.y.label = 'Intersection Size', sets.bar.color=setsBarColors)
### all sets setsBarColors <-c("dodgerblue", "goldenrod1", "darkorange1", "seagreen3", "orchid3", 'cyan3', 'brown2') upset(fromList(dataForUpSetPlot), nsets=length(dataForUpSetPlot), nintersects = 1000, #sets = c("A", "B", "C", 'D','E','G','H'), #keep.order = TRUE, point.size = 1, line.size = 0.5, number.angles = 0, text.scale = c(1.5, 1.2, 1.2, 1, 1.5, 1), # ytitle, ylabel, xtitle, xlabel, sets, number #order.by="degree", matrix.color="black", main.bar.color = 'black', mainbar.y.label = 'Intersection Size', sets.bar.color=setsBarColors)
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- 发表于 2019-08-19 11:31
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- 分类：R
