论文
Plasma proteome analyses in individuals of European and African ancestry identify cis-pQTLs and models for proteome-wide association studies
https://www.nature.com/articles/s41588-022-01051-w
本地pdf s41588-022-01051-w.pdf
代码链接
https://zenodo.org/record/6332981#.YroV0nZBzic
https://github.com/Jingning-Zhang/PlasmaProtein/tree/v1.2
今天的推文重复一下论文中的Extended Data Fig. 10
image.png
部分示例数据截图
image.png
这个是已经做好了主成分分析，现在只是可视化展示结果
读取数据
pc2<-read.delim(file = "data/20220627/ExtendedDataFig10.txt",
header = TRUE,
sep="\t")
head(pc2)
作图代码
library(ggplot2)
library(GGally)
pc.pr <- ggpairs(pc2[,3:7],
aes(color = pc2$V1),
upper = list(continuous = "points"),
diag = list(continuous = "blank")) +
scale_color_manual(values=c("#238b45","#2171b5")) +
theme(panel.background = element_blank(),
legend.position = "bottom",
axis.text = element_text(size = 6),
axis.title = element_text(size = 7)) +
scale_x_continuous(breaks = c(-0.01,0,0.01),
labels = c(-0.01,0,0.01)) +
scale_y_continuous(breaks = c(-0.01,0,0.01),
labels = c(-0.01,0,0.01))
pc.pr
image.png
拼图代码
pc.pr+
scale_color_manual(values = c("#f47720","#459943")) -> p2
library(patchwork)
pdf(file="Rplot05.pdf",
width = 9.4,
height = 4)
wrap_elements(ggmatrix_gtable(pc.pr))+
wrap_elements(ggmatrix_gtable(p2))
dev.off()
image.png
新知识点：ggpairs()函数作图后的拼图代码wrap_elements(ggmatrix_gtable(pc.pr))+ wrap_elements(ggmatrix_gtable(p2))
参考链接
https://github.com/thomasp85/patchwork/issues/100
示例数据和代码可以自己到论文中获取，或者给本篇推文点赞，点击在看，然后留言获取
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