I am creating ridge plots from the Seurat package. This packages utilizes ggplot2. All of my ridge plots look great except for one. I am trying to manually adjust the bandwidth to make this plot look similar to the others but I wind up with two ridge plots overlapping one another.
I can't post an example of the data as the data is a Seurat object and not a standard df. Apologies in advance!
RidgePlot(object = sc1, features = "FGF2+Heparin")
produces:
When I attempt to change the bandwidth using + geom_density_ridges(scale = 2)
I get this:
I am trying to get it to look more similar to this:
Thank you for your help!
EDIT 02/23/22
I have made good progress but I am still running into an issue. Ideally, ggplot2 would completely overwrite the previous points.
RidgePlot(sc1, features = "FGF2+Heparin") + geom_density_ridges2(scale = 4, bandwidth = 2) + theme(legend.position = "none") + xlab("Concentration [AU]") + ylab("Cluster") +
scale_fill_manual(
values = c("#FF3500A0", "#CC9933FF", "#33C04CCF", "#39CCCAAF", "#0000FFA0", "#FF88EEE9")
)
I indirectly solved the issue I was having by changing the size of the bandwidth and the colors of the plots.
I made some colors translucent so that you can see the peaks behind them. Example:
This code applies to a single plot. p12 <- RidgePlot(sc1, features = "Y-27632") + geom_density_ridges2(scale = 4, bandwidth = 2.05) + theme(legend.position = "none") + xlab("Concentration [uM]") + ylab("Cluster") + scale_fill_manual( values = c("#FF3500A0", "#CC9933FF", "#33C04CCF", "#66CCFF", "#0000FF", "#FF66CC") )