Color coding scatter plot (PCA)

[Staggy]

I'm using the following code to seperatly color code my 3 groups in r:

pca_ggp = ggplot(pca_coordinates, aes(x=PC1, y=PC2)) + geom_point() +
scale_colour_manual(values=c("red", "blue", "green"))

However, all the dots come back black.

Can anyone please help,

all the best.

[scottyd22]

Can you please share what your data looks like? One way would be to paste in what you get from dplyr::glimpse(pca_coordinates).

[Taranpreet_Kaur]

Actually I have been trying to implement the same where I have two numeric columns x and y and I want to plot those points using different color and size. I went ahead to plot line chart with points for them , but it didn't seem to differentiate the points of x and y. Meanwhile data looks like this.

dplyr::glimpse(comData)
Rows: 8
Columns: 2
x <dbl> 0.4177, 10.3630, 0.7201, 0.2004, -0.8227, 0.9485, -0.0071, 1.0090 y 0.3706, 9.4265, 0.7227, 0.2009, -0.7709, 0.9566, -0.0075, 1.0153

[Matthias]

Do you have a column that codes the groups in your pca_coordinates? I guess not.
Maybe you need to merge the results from the PCA with your input.
When you have this column, you need to define this in the aes() statement,
ggplot(pca_coordinates, aes(x=PC1, y=PC2, colour = group))
See comment from scottyd22 to show us how your data looks like.