I'm trying to make a heatmap
using ggplot2
using the geom_tiles
function here is my code below:
p<-ggplot(data,aes(Treatment,organisms))+geom_tile(aes(fill=S))+ scale_fill_gradient(low = "black",high = "red") + scale_x_discrete(expand = c(0, 0)) + scale_y_discrete(expand = c(0, 0)) + theme(legend.position = "right", axis.ticks = element_blank(), axis.text.x = element_text(size = base_size, angle = 90, hjust = 0, colour = "black"), axis.text.y = element_text(size = base_size, hjust = 1, colour = "black")).
data is my data.csv file
my X axis is types of Treatment
my Y axis is types of organisms
I'm not too familiar with commands and programming and I'm relatively new at this. I just want to be able to specify the order of the labels on the x axis. In this case, I'm trying to specify the order of "Treatment". By default, it orders alphabetically. How do I override this/keep the data in the same order as in my original csv file?
I've tried this command
scale_x_discrete(limits=c("Y","X","Z"))
where x, y and z are my treatment condition order. It however doesn't work very well, and give me missing heat boxes.
It is a little difficult to answer your specific question without a full, reproducible example. However something like this should work:
#Turn your 'treatment' column into a character vector data$Treatment <- as.character(data$Treatment) #Then turn it back into a factor with the levels in the correct order data$Treatment <- factor(data$Treatment, levels=unique(data$Treatment))
In this example, the order of the factor will be the same as in the data.csv
file.
If you prefer a different order, you can order them by hand:
data$Treatment <- factor(data$Treatment, levels=c("Y", "X", "Z"))
However this is dangerous if you have a lot of levels: if you get any of them wrong, that will cause problems.
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