In the picture i have up to 50 different clustering visualized using ggplot and geom_line, now there should be 4 different colors, each representing a genotype, but each line over the different time periods are the same different, only really differencing on the timepoint themselves

data_plot$timestamp <- factor(data_plot$timestamp, levels = c("0min", "45min", "24hr", "6d"))
cluster.condition.png<- ggplot(data_plot, aes(timestamp, value, group = ID )) +
  facet_wrap(~class,nrow = 20, ncol = 10, scales = "free_y") +
  geom_line(alpha = 0.85, aes( x =timestamp, y = value,col = genotype ))  +
  geom_line(data = centers, aes(timestamp, value),
            color = "firebrick1", alpha = 0.80, size = 1.2) +
  labs(x = "Time", y = "Load (normalised)") +
  theme_bw()+
  ggtitle(label = "CONDITION")+
  theme(axis.text.x = element_text(vjust=0.6, angle=-45))

sessionInfo( )

how do I get the blush green lines to be colour coded?

This is not related to Bioconductor. Please ask at biostars.org or StackExchange.

Hello R_diot, try to use fill instead of col in this line:

geom_line(alpha = 0.85, aes( x =timestamp, y = value,col = genotype ))  +

If this solved your question please vote it