Hightlight genes/metabolites in Pathview and ReactomePA
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@emisecherre-23089
Last seen 16 months ago

Hello ! I would like to use Pathview and ReactomePA to visualize my pathways. I have a list of genes and metabolites of interest, and i would like to know how to highlight them (different color for exemple) in the pathway maps returned by these packages ? Thanks for your answer

pathview ReactomePA • 272 views
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@james-w-macdonald-5106
Last seen 1 day ago
United States

There are vignettes for pathview and ReactomePA that show how to do that. Is there something in particular that you don't understand?

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For ReactomePA, i don't get if theres an other way to color nodes than using p-values as i want to color genes and metabolites from my lists. And for pathview, i see its described on the section "8.1 Compound and gene data", but i really don't understand which parameters i have to change to color specific elements...

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