NMDS作图
#install.packages("ggplot2")
#install.packages("permute")
#install.packages("lattice")
#install.packages("vegan")
library(ggplot2)
library(permute)
library(lattice)
library(vegan)
df = read.csv("C:/Users/tangyj/Desktop/NMDS/nmdsdata.csv",header = T, row.names = 1)
#df=t(df) # 对数据进行转置
dfGroup = read.delim("C:/Users/tangyj/Desktop/NMDS/nmdsgroup.csv",row.names = 1)
dfNmds<-metaMDS(df,distance="bray",k = 2)
# 绘图前的数据整理
data = data.frame(dfNmds$points)
data$group = dfGroup$Group
# 绘图
#使用ggplot2画图,逐步添加
ggplot(data,aes(x = MDS1,
y = MDS2,
color = group,
group = group,
fill = group)
)+
geom_point(size=2)+
theme_classic()+
stat_ellipse( # 添加置信区间
geom = "polygon",
level = 0.95,
alpha=0.3)+
geom_text( # 添加文本标签
aes(label=rownames(data)),
vjust=1.5,
size=2,
color = "black"
)+
labs( # 在副标题处添加stress
subtitle = paste("stress=",round(dfNmds$stress,3),sep="")
)
前面运行过程都未报错,但是在运行绘图时报错(如图)请问各位大神这种情况处理?是数据整理出错了吗?(示例数据上传)还是作图代码写错了?


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