clockrate_reg_plot {EvoPhylo} | R Documentation |
Displays a scatterplot and fits regression line of one set of clock rates against another, optionally displaying their Pearson correlation coefficient (r) and R-squared values (R^2).
clockrate_reg_plot(rate_table, clock_x, clock_y,
method = "lm", show_lm = TRUE,
...)
rate_table |
A table of clock rates, such as from the output of |
clock_x , clock_y |
The clock rates that should go on the x- and y-axes, respectively. |
method |
The method (function) used fit the regression of one clock on the other. Check the |
show_lm |
Whether to display the Pearson correlation coefficient (r) and R-squared values (R^2) between two sets of clock rates. |
... |
Other arguments passed to |
clockrate_reg_plot()
can only be used when multiple clocks are present in the clock rate table. Unlike clockrate_summary
and clockrate_dens_plot
, no "clade" column is required.
A ggplot
object, which can be modified using ggplot2 functions.
vignette("rates-selection")
for the use of this function as part of an analysis pipeline.
# See vignette("rates-selection") for how to use this
# function as part of an analysis pipeline
data("RateTable_Means_3p_Clades")
#Plot correlations between clocks 1 and 3
clockrate_reg_plot(RateTable_Means_3p_Clades,
clock_x = 1, clock_y = 3)
#Use arguments supplied to geom_smooth():
clockrate_reg_plot(RateTable_Means_3p_Clades,
clock_x = 1, clock_y = 3,
color = "red", se = FALSE)