sysbiolab / PathwaySpace

PathwaySpace is an R package that creates landscape images from graphs containing vertices (nodes), edges (lines), and a signal associated with the vertices.

PathwaySpace: Spatial projection of network signals along geodesic paths

PathwaySpace is an R package that creates landscape images from graphs containing vertices (nodes), edges (lines), and a signal associated with the vertices. The package processes the signal using a convolution algorithm that considers the graph's topology to project the signal on a 2D space.

PathwaySpace could have various applications, such as visualizing network data in a graphical format that highlights the relationships and signal strengths between vertices.

Installation in R (>=4.2)

Install dependencies to build the package's vignettes

install.packages("knitr")
install.packages("rmarkdown")
install.packages("BiocManager")
BiocManager::install("BiocStyle")

Install the PathwaySpace package

install.packages("remotes")
remotes::install_github("sysbiolab/RGraphSpace", build_vignettes=TRUE)
remotes::install_github("sysbiolab/PathwaySpace", build_vignettes=TRUE)

Examples

Follow the PathwaySpace vignette and try to make some brain plots!

library(PathwaySpace)
vignette("PathwaySpace")

Licenses

The PathwaySpace package is distributed under Artistic-2.0