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r - 如何使用 factoextra 包将斜体字体放入树状图中？

问题描述

使用fviz_dend()factoextra 包的功能，我创建了一个可以在问题末尾的图像中看到的树状图。

但是，我不能将每个物种的名称都用斜体字表示。我测试了这个element_text(face = 'italic')函数，但它只适用于 y 轴标题。如果有人对用斜体字留下物种名称有任何建议，我表示感谢。

我相信这是涉及fviz_dend()功能的东西，但我还没有找到任何关于它的东西。在下面可以找到我使用的代码、生成的图像以及我访问的一些链接，以期找到有关它的信息。

构建表格并准备数据以绘制树状图：

# creating variables
Saccharomyces_cerevisiae <- c(67, 37, 88, 15, 46)
Drosophila_melanogaster <- c(134, 121, 93, 133, 104)
Caenorhabditis_elegans <- c(160, 169, 182, 179, 174)
Xenopus_tropicalis <- c(197, 200, 154, 165, 163)
Mus_musculus <- c(67, 48, 64, 16, 36)
Danio_rerio <- c(176, 189, 200, 152, 184)

# creating data.frame
df <- data.frame(Saccharomyces_cerevisiae,
                 Drosophila_melanogaster,
                 Caenorhabditis_elegans,
                 Xenopus_tropicalis,
                 Mus_musculus,
                 Danio_rerio)

# naming the lines
rownames(df) <- c("ion1","ion2","ion3","ion4","ion5")

# standardizing by columns
df <- scale(df)

# converting columns to rows
df <- t(df)

# generating distance matrix of lines
df.dist <- dist(df, method = "euclidean")

# cluttering
hca <- hclust(df.dist, method = "ward.D2" )

绘制树状图：

# Loading packages
library(factoextra)
library(ggplot2)

# Creating dendrogram
fviz_dend(hca,
          cex = 0.4,
          k = 2,
          labels_track_height = -0.485,
          k_colors = c("blue","#006600"),
          rect = TRUE,
          rect_fill = TRUE, 
          rect_border = c("blue","#006600"),
          color_labels_by_k = TRUE,
          main = "",
          ylab = "Linkage distance",
          xlab = "") +
  scale_y_continuous(breaks = seq(-12, 5, by = 1), limits=c(-12,5)) +
  theme_classic() + 
  theme(axis.title.y = element_text(size = rel(0.7), color = "black", face = 'italic'),
        axis.title.x = element_text(size = rel(0.7), color = "black"),
        axis.text.x = element_text(size = rel(0.5),color = "black"),
        axis.text.y = element_text(size = rel(0.5),color = "black")) +
  ggsave("dendrogram.png", width = 5, height = 5, units = "cm", dpi=300)

树状图

在此处输入图像描述

我搜索的一些来源：

https://www.rdocumentation.org/packages/factoextra/versions/1.0.7/topics/fviz_dend

https://cran.r-project.org/web/packages/factoextra/factoextra.pdf

https://www.datanovia.com/en/lessons/examples-of-dendrograms-visualization/

http://www.sthda.com/english/wiki/beautiful-dendrogram-visualizations-in-r-5-must-known-methods-unsupervised-machine-learning

标签： rdendrogram

解决方案

我在一个非常相似的帖子中得到了解决方案：

如何制作斜体的图表字体？（ggplot2 和 factoextra 包）

以下是解决方案：

# Loading packages
library(factoextra)
library(ggplot2)

# creating dendrogram
graph <- fviz_dend(hca,
          cex = 0.4,
          k = 2,
          labels_track_height = -0.485,
          k_colors = c("blue","#006600"),
          rect = TRUE,
          rect_fill = TRUE, 
          rect_border = c("blue","#006600"),
          color_labels_by_k = TRUE,
          main = "",
          ylab = "Linkage distance",
          xlab = "") +
  scale_y_continuous(breaks = seq(-12, 5, by = 1), limits=c(-12,5)) +
  theme_classic() + 
  theme(axis.title.y = element_text(size = rel(0.7), color = "black", face = 'italic'),
        axis.title.x = element_text(size = rel(0.7), color = "black"),
        axis.text.x = element_text(size = rel(0.5),color = "black"),
        axis.text.y = element_text(size = rel(0.5),color = "black"))

# solution
graph$layers[[2]]$aes_params$fontface <- "italic"

# plotting
graph

# saving
ggsave("dendrogram.png", width = 5, height = 5, units = "cm", dpi=300)

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