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EnrichIntersect: an R package for custom set enrichment analysis and interactive visualization of intersecting sets.

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EnrichIntersect is a new R package for flexible enrichment analysis. It allows custom gene sets and visualizes complex associations between features and phenotypes, aiding biological discovery.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Enrichment analysis identifies biological pathways or gene sets associated with phenotypes.
  • Current tools are limited to predefined gene sets from public databases.
  • Flexible analysis of custom gene sets and complex data is needed.

Purpose of the Study:

  • Introduce EnrichIntersect, an R package for flexible enrichment analysis.
  • Enable enrichment analysis using user-defined custom sets.
  • Provide interactive visualization for multiple covariates and phenotypes.

Main Methods:

  • Developed an R package named EnrichIntersect.
  • Implemented functionality for enrichment analysis with custom sets.
  • Integrated interactive visualization for multiple features and sample groups.

Main Results:

  • EnrichIntersect supports enrichment analysis with any ranked features and user-defined custom sets.
  • The package offers interactive visualization of associations between multiple covariates and phenotypes.
  • It clearly indicates intersecting covariates across multiple phenotypic variables and sample groups.

Conclusions:

  • EnrichIntersect enhances the flexibility of enrichment analysis.
  • The package facilitates the exploration of complex biological associations.
  • It aids in identifying intersecting biological features across diverse phenotypes and sample groups.