Plot Gene Dynamics Trends Along Trajectory Tubes

Generates a high-clarity plot showing smoothed maturation trends for specific genes. Automatically maps cells to their respective overlapping biological tubes (e.g., Tube_Cd4, Tube_Cd8a) and plots the expression dynamics across Tocky Time. Cells with dual identities properly contribute to the shared origins of multiple trajectories.

Usage

plotLineageGeneDynamics(object, seurat_obj, features, ...)

# S4 method for class 'mCanonicalTockyObj'
plotLineageGeneDynamics(object, seurat_obj, features, ncol = 2)

Arguments

object

An mCanonicalTockyObj containing tube assignments.

seurat_obj

The original Seurat object to fetch gene expression from.

features

Character vector of genes to plot.

...

Additional arguments passed to methods.

ncol

Integer. Number of columns for the plot grid (default 2).