sigven/oncoEnrichR: Cancer-dedicated gene set interpretation

oncoEnrichR performs annotation and prioritization of genesets discovered from high-throughput experiments within cancer biology. The tool queries a number of high-quality resources, including DepMap/Project Score (cellular fitness in genome-scale drop-out screens), Open Targets Platform (comprehensive target-drug associations, cancer hallmark evidence and target-tumor type associations), TCGA (genetic aberrations and gene co-expression patterns in human tumor samples), STRING/BioGRID (protein-protein interaction networks), curated protein complexes (CORUM/Compleat/ComplexPortal/hu.MAP2), COMPARTMENTS (subcellular compartments), Human Protein Atlas (tissue and cell-type specific expression patterns and prognostic associations), CellChatDB (ligand-receptor interactions), DoRothEA (regulatory interactions), synthetic lethality predictions, and Gene Ontology/MSigDB/REACTOME/KEGG/NetPath (functional enrichment/over-representation analysis with respect to gene function and cellular pathways). The package outputs both an interactive HTML report and an Excel workbook in which the user can interrogate the various types of annotations and analyses performed with the query geneset.

install.packages("remotes")
remotes::install_github("sigven/oncoEnrichR")