CODEWITHSUNDEEP
rggplot2
zahra abdi
zahra abdi

Reputation: 337

How to change the NA value in barplot?

when I try to plot df I find NA in the barplot. I can't understand why. Here is df

dput(df)
structure(list(Cancer.type = c(" BLCA", " BLCA", " BLCA", "BRCA", 
"BRCA", "BRCA", "COAD", "COAD", "COAD", "ESCA", "ESCA", "ESCA", 
"GBM", "GBM", "GBM", "KIRC", "KIRC", "KIRC", "LIHC", "LIHC", 
"LIHC", "LUAD", "LUAD", "LUAD", "LUSC", "LUSC", "LUSC", "PRAD", 
"PRAD", "PRAD", "STAD", "STAD", "STAD", "THCA", "THCA", "THCA", 
"UCEC", "UCEC", "UCEC"), Number.of.genes = c(4L, 5L, 7L, 8L, 
6L, 2L, 1L, 10L, 5L, 3L, 5L, 8L, 2L, 4L, 10L, 2L, 8L, 6L, 5L, 
5L, 6L, 5L, 8L, 3L, 4L, 8L, 4L, 4L, 6L, 6L, 2L, 5L, 9L, 8L, 3L, 
5L, 4L, 3L, 9L), Condition = c("Down ", "Up", "ns", "Down ", 
"Up", "ns", "Down ", "Up", "ns", "Down ", "Up", "ns", "Down ", 
"Up", "ns", "Down ", "Up", "ns", "Down ", "Up", "ns", "Down ", 
"Up", "ns", "Down ", "Up", "ns", "Down ", "Up", "ns", "Down ", 
"Up", "ns", "Down ", "Up", "ns", "Down ", "Up", "ns")), class = "data.frame", row.names = c(NA, 
-39L))

Here is my script

ggplot(df,aes(fill = factor(Condition, levels = c('Down','Up','ns')),
               y = Number.of.genes, x =Cancer.type)) + 
 geom_bar(position="stack", stat="identity")+theme_bw()+
   theme(axis.text.x = element_text(size = 10, angle = 45, hjust = 1, colour = 'black'))+
   scale_fill_manual(values=c("seagreen2", "deepskyblue3",'goldenrod1'))+
   labs(fill = 'Condition', x = NULL)

enter image description here

Thanks for any help.

Upvotes: 3

Views: 41

Answers (1)

Sotos
Sotos

Reputation: 51592

In your Condition column, the Down actually has a trailing space. So you can do 3 things:

  1. remove the space from your data frame

df$Condition <- gsub(' ', '', df$Condition)

  1. Add the space in levels()

ggplot(df,aes(fill = factor(Condition, levels = c('Down ','Up','ns'))

  1. Remove the levels argument

ggplot(df,aes(fill = factor(Condition)

Upvotes: 4

Related Questions