ViSEAGO

The ViSEAGO package in R is for data mining of biological functions and establishing connections between genes within a study. The main objective is facilitating functional Gene Ontology (GO) analysis, especially in complex experimental designs with multiple comparisons. The package allows the analysis of large-scale datasets, offering visualization of GO profiles to capture biological knowledge. ViSEAGO integrates the concepts of Visualization, Semantic similarity, and Enrichment Analysis of Gene Ontology (GO). It provides access to the latest GO annotations from various databases for different species. The tool extends classical functional GO analysis by focusing on functional coherence, aggregating closely related biological themes, and simultaneously enabling the study of multiple datasets. ViSEAGO offers a synthetic and detailed view, incorporating interactive functionalities that respect the GO graph structure and ensure functional coherence through semantic similarity.