GSOAP

"GSOAP" (Gene Sets Over-representation Analysis Plot) is an R package to enhance the visualization of Gene Sets Over-representation Analysis (GSOA) results. Recognizing the gap in standard visualization techniques for GSOA results, GSOAP introduces a novel approach to graphically display the relationships among enriched instances, such as pathways, while emphasizing key attributes like significance, centrality, and clustering.

Key Features and Functionalities:

- Visual Exploration of GSOA Results: GSOAP allows for an intuitive visual exploration of GSOA results, facilitating an understanding of complex relationships among enriched gene sets and instances.

- Highlighting of Instance Attributes: The package provides visualization features highlighting important attributes of instances, including their significance levels, centrality (indicating their closeness or importance within the network), and their clustering within the analysis.

Topic

Molecular interactions, pathways and networks;Functional, regulatory and non-coding RNA;Gene expression

Detail

  • Operation: Enrichment analysis;Visualisation;Clustering

  • Software interface: Command-line interface

  • Language: R

  • License: GNU General Public License, version 2

  • Cost: Free with restrictions

  • Version name: 0.1.0

  • Credit: Ontario Research Fund, Natural Sciences Research Council, Canada Foundation for Innovation, IBM, and Ian Lawson van Toch Fund.

  • Input: -

  • Output: -

  • Contact: Igor Jurisica juris@ai.utoronto.ca

  • Collection: -

  • Maturity: -

Publications

  • GSOAP: a tool for visualization of gene set over-representation analysis.
  • Tokar T, et al. GSOAP: a tool for visualization of gene set over-representation analysis. GSOAP: a tool for visualization of gene set over-representation analysis. 2020; 36:2923-2925. doi: 10.1093/bioinformatics/btaa001
  • https://doi.org/10.1093/BIOINFORMATICS/BTAA001
  • PMID: 31977031
  • PMC: PMC7203738

Download and documentation

< Back to DB search