The aim of weaver is to provide gene set enrichment analysis (GSEA) exploration tools.
weaver allows you to explore and analyze GSEA results by performing multidimensional scaling using a Jaccard index matrix of gene sets. This approach captures the similarities between gene ontologies based on the intersection of their associated gene sets. The resulting graph, represented as an undirected igraph object, visualizes the relationships between gene ontologies.
- Multidimensional scaling using the Jaccard index matrix to capture similarities between gene ontologies.
- Construction of an informative graph representation using the
igraphpackage. - Ranking of gene ontologies using three different metrics: total similarity score, eigencentrality, and normalized degree.
- Identification of the most informative gene ontology based on the highest rank within a subgraph.
- Facilitation of GSEA result manual curation using the ranked list of gene ontologies.
TODO: Installation TODO: User journey map
If you have any suggestions, bug reports, or feature requests, please open an issue on GitHub.
weaver is released under the MIT License.