QQ plot comparing partial TAI distributions across developmental stages against a reference stage
Source:R/plot_distribution_partialTAI_qqplot.R
plot_distribution_partialTAI_qqplot.Rdplot_distribution_partialTAI_qqplot generates a QQ plot to compare the partial TAI
distributions of various developmental stages against a reference stage.
It visualizes quantile differences between the reference and other stages,
highlights each stage with distinct colors, and annotates the plot with the p-values
from the nonparametric ks.test to indicate the significance of distribution differences.
Usage
plot_distribution_partialTAI_qqplot(
ExpressionSet,
reference_stage_index = 1,
xlab = "Quantiles of Reference Stage",
ylab = "Quantiles of Other Stages",
main = "QQ Plot: Developmental Stages vs Reference Stage (p-values from KS test)",
alpha = 0.7,
size = 1.2
)Arguments
- ExpressionSet
a standard PhyloExpressionSet or DivergenceExpressionSet object.
- reference_stage_index
an integer specifying the index of the reference developmental stage of the ExpressionSet. The partial TAI distribution of this stage will be used as the reference for comparisons with other stages (as default stage index 1).
- xlab
label of x-axis.
- ylab
label of y-axis.
- main
figure title.
- alpha
transparency of the point.
- size
size of the points.