plotPathDistances: Accessory function to plot pathway space distances

In PathwaySpace: Spatial Projection of Network Signals along Geodesic Paths

Accessory function to plot pathway space distances

Description

Accessory function to plot pathway space distances

Usage

plotPathDistances(pdist, z.transform = FALSE)

Arguments

pdist	A list generated by the pathDistances function.
z.transform	A single logical value specifying to convert pathway distances into z-score values.

Value

A 'ggplot' object.

Examples

# Load a vertex-wise distance matrix (distance between nodes in a graph)
data("gdist.toy", package = "PathwaySpace")

# Get two gene lists
from <- sample(colnames(gdist.toy), 50)
to <- sample(colnames(gdist.toy), 50)

# Calculate distances between lists, and between random lists
res <- pathDistances(gdist.toy, from, to)

# Plot observed and null distances
plotPathDistances(res)

PathwaySpace documentation built on Aug. 8, 2025, 6:47 p.m.