Question

change text size in plotmd functtion

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najib • 0

@59ce8241

Last seen 19 months ago

South Korea

hello, I am trying to change the size text of x and y axis in plotMD under EdgeR package, however I couldn't find any solution to it. how is it possible to do it? thank you.

edgeR plotmd • 2.6k views

ADD COMMENT • link 3.4 years ago najib • 0

score 1 · Answer 1 · 2021-06-23

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Gordon Smyth 51k

@gordon-smyth

Last seen 12 minutes ago

WEHI, Melbourne, Australia

Do you mean the text in the legend? Anyway, just make the dimensions of your graphics window smaller, then all points, labels and text in the plot will become relatively larger, with everything still in proportion. This is a universal R solution, not limited to edgeR.

If you want more control, plotMD accepts the usual range of R graphics parameters, which control all sorts of things including axis label sizes, see ?par.

ADD COMMENT • link 3.4 years ago Gordon Smyth 51k

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I mean the axis x and y and their number as well change the font to bold. also is it possible to store the produced graph as follow:

p<- plotMD(dgeTestFilt, xlab = "Average log-expression", ylab = "Expression log-ratio (this sample vs others)") but i didn't work . enter image description here

ADD REPLY • link 3.4 years ago najib • 0

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Yes, you can save any plot in R. See the help pages:

?postscript
?pdf
?png

If you are using a gui like Rstudio or R for Windows then there are other options as well. The help pages also explain how to change the plot window dimensions.

ADD REPLY • link 3.4 years ago Gordon Smyth 51k

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it is possible to edit the image through use of illustrator, just i was wondering if it is possible to do it through Rstudio as I did for the pca figure:

A<- A+ theme(axis.text.x = element_text(angle = 0, size=14, face= "bold"), axis.text = element_text( size = 14, face="bold"), axis.text.y = element_text(size=14, face= "bold"), axis.title = element_text( size = 16, face = "bold" ), strip.text = element_text(size = 14, face= "bold"))+ theme(plot.title = element_text(size = 16, face = "bold"))+ theme(legend.title = element_text(size = 16, face="bold"), legend.text= element_text(size= 14, face= "bold")) A

ADD REPLY • link 3.4 years ago najib • 0

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Have you tried my original suggestion? It is a lot easier:

pdf(file="plotMD.pdf", width=4, height=4)
plotMD(fit, ....)
dev.off()

ADD REPLY • link 3.4 years ago Gordon Smyth 51k

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I will try your suggestion. just wondering if it is possible to do it through plotMD function.

ADD REPLY • link 3.4 years ago najib • 0

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plotMD accepts the usual range of R graphics parameters, see ?par.

ADD REPLY • link 3.4 years ago Gordon Smyth 51k

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thank you a lot.

ADD REPLY • link 3.4 years ago najib • 0