Function to plot a distribution of fitnesses W or selection coefficients S for a given optimal aa and other terms.
1 2 3 4 |
aa.fitness.matrices, |
A 3d array of aa.fitness.matrix returned from ComputeEquilibriumAAFitness (first element in return) |
values |
The vector of labels for each matrix (i.e., different Phi values) |
optimal.aa |
Single letter code for the optimal aa. If NULL, integrates across aa. |
palette |
Color palette to use from RColorBrewer |
lwd |
Line width |
include.stop.codon |
Include stop codons |
type |
If "histogram", do a histogram plot; if "density", do a density plot |
fitness |
If TRUE, plot fitness W; if FALSE, plot selection coefficient S (= W- 1) |
scale.x.axis.by.Ne |
if TRUE, x axis is transformed from S to S*Ne; if FALSE no scaling is done |
legend.title |
Sets the title of the figure legend. |
Ne |
used to scale x axis when scale.x.axis.by.Ne is TRUE |
... |
Other paramters to pass to plot() |
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