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ahmohamed / lipidr

Data Mining and Analysis of Lipidomics datasets in R
https://www.lipidr.org/
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Showing plot_chain_distribution(data) for multiple groups at the same time #19

Closed FernandoTobias closed 3 years ago

FernandoTobias commented 3 years ago

Hello- In the vignettes, it has been shown being able to show multiple volcano plots at the same time from 2 or more groups. Is it possible to show for plot_chain_distribution(data) with 2 or more groups? While Log2FC scaling remains the same across the groups?

I have done separate plot_chain_distribution(data) for a 3 groups of my data but am having trouble with showing them at the same color scaling. Thank you.

ahmohamed commented 3 years ago

Hi Fernando, Unfortunately, plot_chain_distribution cannot display multiple comparisons at the same time, mainly because of ggplot2 limitations. facet_wrap that is used to display multiple groups in other functions is already used to display classes.

However, you can definitely have multiple plots on the same color scale. Basically, all lipidr plot functions return a ggplot object that you can hack / modify as needed. In this case you can override the color scale with your own:

plot_chain_distribution(de_results) + ggplot2::scale_fill_gradient2(midpoint = 0, limits=c(-3, 3))

Let me know if that addresses the issue.

FernandoTobias commented 3 years ago

That's a shame, but yes your suggestion helps!

Thanks - this addresses my issue.