PathwaySpace: Spatial Projection of Network Signals along Geodesic Paths

For a given graph containing vertices, edges, and a signal associated with the vertices, the 'PathwaySpace' package performs a convolution operation, which involves a weighted combination of neighboring vertices and their associated signals. The package uses a decay function to project these signals, creating geodesic paths on a 2D-image space. 'PathwaySpace' has various applications, such as visualizing network data in a graphical format that highlights the relationships and signal strengths between vertices. By combining graph theory, signal processing, and visualization, 'PathwaySpace' provides a way of representing graph data on a continuous projection space. Based on methods introduced in Tercan et al. (2025) doi:10.1016/j.xpro.2025.103681 and Ellrott et al. (2025) doi:10.1016/j.ccell.2024.12.002 .

Details

For a hands-on introduction, see the vignette: vignette("PathwaySpace").

The full set of documented topics can also be browsed in HTML by running help.start() and selecting the PathwaySpace package from the package list.

References

To cite this package, use citation("PathwaySpace").

See also

Useful links:

• https://sysbiolab.github.io/PathwaySpace/

• https://github.com/sysbiolab/PathwaySpace

• Report bugs at https://github.com/sysbiolab/PathwaySpace/issues

Author

Maintainer: Mauro Castro mauro.a.castro@gmail.com (ORCID)

Authors:

• Sysbiolab Team

Other contributors:

• Victor Apolonio [contributor]

• Jonathan Back [contributor]

• Lana Querne [contributor]

• Vinicius Chagas [contributor]

• Bahar Tercan [contributor]