Closed williamsdrake closed 4 years ago
thanks @williamsdrake! glad you like pathfindR.
There are no arguments for customizing colors for enrichment_chart()
and term_gene_graph()
. However, both of these return ggplot objects so you can replace the color scale via:
g <- enrichment_chart(RA_output)
g <- g + scale_color_gradient(low = "gray60", high = "green")
g
and for term_gene_graph()
(it's a bit trickier (because you also need to supply the labels):
g <- term_gene_graph(RA_output)
g <- g + scale_colour_manual(values = c("orange", "purple", "blue"),
labels = c("enriched term",
"up-regulated gene",
"down-regulated gene"))
g
Hope this helps, Best, -E
Thank you very much, this clears it up!
First, this package is fantastic! Thank you for your work thus far. I was wondering if there is a way to change the default colors for the bubble plots and term gene graphs. I was not able to find any arguments that change the colors in the pathfindR manual. Thanks for your help