r - Color scale ignored by ggplot2 geom_point - 


  ggplot() +        geom_point(data=as.data.frame(res), aes_string(x=res$log2foldchange, y=-log10(res$padj)), colour="darkgrey", alpha=6/10, size=2) +        geom_point(data=sig_data, aes_string(x=sig_data$log2foldchange, y=-log10(sig_data$padj)), shape = 21, colour=sig_data$basemean, alpha=5/10, fill = na, size=2,stroke=0.75)+        scale_color_brewer(palette="blues")

no matter specify color scale, silly rainbow scale used without legend indicating colors mean.

my guess syntax wrong. should either

aes(x = log2foldchange, y = -log10(padj), color = basemean)

or if you're hellbent on using aes_string

aes_string(x = "log2foldchange", y = "-log10(padj)", color = "basemean"))

here's example

library(ggplot2)  ggplot(mtcars, aes(x = mpg, y = -log10(wt), color = as.factor(cyl))) +   geom_point()  ggplot(mtcars, aes_string(x = "mpg", y = "-log10(wt)", color = "as.factor(cyl)")) +   geom_point()

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