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High-quality visualization of GSEA data illustrating relationships between multiple pathways.

I am finishing up a collaboration for a group for whom I have been analyzing some RNA sequencing data.

I have already generated the "standard" figures for GSEA analysis, (e.g. barcode plots, leading edge heatmaps, a joyplot, and a few other things that visualize individual pathways.).

What I am looking to do now is generate another (custom) figure that summarizes the findings from several pathways at the same time. I had thought about a circos plot might work well to illustrate the connectedness of multiple pathways, but before committing to that, I wanted to ask,

Have you seen any very well-done visualizations of gene set enrichment analyses; in particular, something that summarizes results from tests of multiple pathways of interest at the same time?

I am familiar with a variety of tools in R python bash etc.; I do not mind if the right figure is not easy to generate as long as it really pops. Thank you for your time.

gsea figure
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written by LauferVA LauferVA

In my experience people usually just pick a few individual pathways of interest and show those side by side. Couldn't you do a bar graph showing enrichment score by pathway, like is often done with GO results?

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written by abbey abbey

yes i can do this, however it does not address the questions as posted above.

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written by LauferVA LauferVA

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