Getting started with PathwaySpace

Sysbiolab Team

2026-06-23

Package: PathwaySpace 1.4.1

Introductory vignettes

These tutorials introduce PathwaySpace using simple toy examples: Network Signal Projections walks through the main PathwaySpace projection methods; Signal Decay Functions describes how to set up decay functions to model specific network nodes; and Signal Aggregation Rules demonstrates how to create signal aggregation functions to emphasize patterns in the data.

Network Signal Projections

Signal Decay Functions

Signal Aggregation Rules

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Visualizing features in PathwaySpace

These tutorials showcase PathwaySpace applied to real-world scenarios, highlighting complex feature patterns. The Sparse Feature Sets vignette demonstrates how to analyze feature signals when only a limited number of nodes carry relevant information, while the Spatial Transcriptomics vignette illustrates how to project gene expression signals across tissue sections.

Sparse Feature Sets

Spatial Transcriptomics