The fobitools framework: the first steps towards food enrichment analysis.

Abstract

The FOBI ontology can be of great help in nutrimetabolomic studies due to its wide variety of applications, including the possibility of performing different enrichment analyses. However, the programming skills required to query and explore it may limit its use by the scientific community. Here, we present the fobitools framework, comprised of an R/Bioconductor package and its complementary web interface. These two tools allow researchers to interact and explore the FOBI ontology in a highly user-friendly way. The fobitools framework is focused on the novel concept of food enrichment analysis in nutrimetabolomic studies. However, other useful features, such as the network interactive visualization of FOBI and the automatic annotation of dietary free-text data are also presented. Both the fobitools R/Bioconductor package and the fobitoolsGUI web-based application, together with their installation instructions and examples, are freely available at https://github.com/nutrimetabolomics/fobitools and https://github.com/nutrimetabolomics/fobitoolsGUI, respectively. Supplementary data are available at Bioinformatics online.