YuLab-SMU/ggmsa

question about save to image

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orangeSi commented

I use above code to save to image file xx.png,

library(ggmsa)

png('xx.png')
protein_sequences <- system.file("extdata", "sample.fasta", package = "ggmsa")
ggmsa(protein_sequences, start = 221, end = 280, char_width = 0.5, seq_name = TRUE) + geom_seqlogo() + geom_msaBar()
dev.off()

and I get wired width image as below:
xx (2)

So how I adjust the proper image width or autoadjust it ?

My environment is as this：

R version 4.1.1 
ggmsa 1.0.2
Ubuntu 18.04.4 LTS

Thanks！
Si

nyzhoulang commented

Hi, Si

ggsave can help you adjust the image to the right size.

library(ggmsa)
fasta <- system.file("extdata", "sample.fasta", package = "ggmsa")
p <- ggmsa(fasta, 164, 213, color="Chemistry_AA")

library(ggplot2)
ggsave(filename = "p.png", plot = p, height = 5, width = 13)

Regards,
Lang

orangeSi commented

library(ggplot2)

Thanks for let me known me know the ggsave! I am not familiar with ggplot or ggsave. Above code can sove my problem, but I am not sure how to set the proper height and width of p.png. When I not set specific width and height for ggsave, I got a image of 2100x2100.

orangeSi commented

Hi, Si

ggsave can help you adjust the image to the right size.

library(ggmsa)
fasta <- system.file("extdata", "sample.fasta", package = "ggmsa")
p <- ggmsa(fasta, 164, 213, color="Chemistry_AA")

library(ggplot2)
ggsave(filename = "p.png", plot = p, height = 5, width = 13)

Regards, Lang

And add ggsave(filename = "p.png", plot = p, height = 5, width = 13) to README.md will helpful for ggplot2 newbie like me~

nyzhoulang commented

Above code can sove my problem, but I am not sure how to set the proper height and width of p.png

In general, I would choose width and height between1 and 15.
This requires you to adjust several times according to the actual output.

And add ggsave(filename = "p.png", plot = p, height = 5, width = 13) to README.md will helpful for ggplot2 newbie like me~

nice advice!

Thanks,
Lang

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