This is a test version of Biostars. For the public version, visit https://www.biostars.org.
barplot is missing in png file after saving

Dear all:

I am using ggplot to do a barplot for geneOntology in R. The output is fine. However, I can only see the labeling of the bar in the saved png file. But if I saved it as pdf all the content is shown .

How should I adjust the size of the image.

My code is:

p <- ggplot(data=mydata_3, aes(x=Term, y=logPValue), size =1) +
  geom_bar(position = 'dodge', stat='identity', fill = "red") +
  geom_text(aes(x = Term, y = logPValue,label=Count), hjust = -0.5, size = 3, inherit.aes = TRUE)

p + coord_flip() + theme_bw() +
  theme(
    panel.border = element_blank(), panel.grid.major = element_blank(),
    panel.grid.minor = element_blank(), axis.line = element_line(colour = "black"))
rna-seq r software error next-gen gene
• 2,314 views • link
updated by Biostar Biostar • written by Kai_Qi Kai_Qi

I see no code related to png/pdf, please add this.

• 0 views • link
written by ATpoint ATpoint

Thank you. I exported it from R.

• 0 views • link
written by Kai_Qi Kai_Qi

Sorry, what? How are you saving as pdf? Are you using the pdf(); ... dev.off() method or the ggsave() function?

• 0 views • link
written by Ram Ram

I run the code on Rstudio. on the right corner, there is a image, i just export it as pdf.

• 0 views • link
written by Kai_Qi Kai_Qi

OK. Thank you. dev.off enable me to get the file.

Thanks again,

• 0 views • link
written by Kai_Qi Kai_Qi

Yes, obviously, but which code? Or did you do it by clicking in RStudio?

• 0 views • link
written by ATpoint ATpoint

Right. I did not have code. I ran it in Rstudio.

• 0 views • link
written by Kai_Qi Kai_Qi

You should use ggsave. It will give you a lot more control than using RStudio. Even in Rstudio export, you should be able to specify plot dimensions.

• 0 views • link
written by Ram Ram

0 answers

No answers yet.

Log in to answer this question.

More posts like this