Constructor of PathwaySpace-class Objects

buildPathwaySpace is a constructor of PathwaySpace-class objects.

Usage

buildPathwaySpace(gs, nrc = 500, verbose = TRUE, g = deprecated())

Arguments

gs

A GraphSpace object. Alternatively, an igraph object with node coordinates assigned to x and y vertex attributes, and node labels assigned to name vertex attribute.

nrc

A single positive integer indicating the number of rows and columns (in pixels) for a square image matrix. This argument will affect the resulting image size and resolution.

verbose

A logical value specifying to display detailed messages (when verbose=TRUE) or not (when verbose=FALSE).

g

Deprecated from PathwaySpace 1.0.1; use 'gs' instead.

Value

A pre-processed PathwaySpace class object.

See also

undirected_graph

Author

Sysbiolab Team

Examples

# Load a demo igraph
data('gtoy1', package = 'RGraphSpace')

# Check graph validity
gs <- GraphSpace(gtoy1)
#> Validating the 'igraph' object...
#> Creating a 'GraphSpace' object...

gs <- normalizeGraphSpace(gs)
#> Normalizing node coordinates to graph space...

# Create a new PathwaySpace object
ps <- buildPathwaySpace(gs, nrc = 100)
#> Validating arguments...
#> Creating a 'PathwaySpace' object...
# note: adjust 'nrc' to increase image resolution