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snpGeneSets is a tool to annotate the genome-wide association study (GWAS) data. The snpGeneSets tool includes functions for genomic mapping annotation of SNPs, genes, the functional annotation for gene sets, the bidirectional mapping between SNPs and genes, and genes and gene sets, calculation of gene effects, gene set enrichment analyses for the identification of pathways.


GWAS study; Nucleic acid structure analysis; Genomics


  • Operation: SNP annotation
  • Software interface: Command-line user interface
  • Language: R
  • Operating system: Microsoft Windows
  • License: Other
  • Cost: Free
  • Version name: 1.12
  • Credit: The National Institutes of Health (NIH), NIH Heart, Lung, and Blood Institute, Mississippi IDeA Network of Biomedical Research Excellence.
  • Contact: hmei _at_ | arrow64 _at_
  • Collection: -


Mei H, Li L, Jiang F, Simino J, Griswold M, Mosley T, Liu S "snpGeneSets: An R Package for Genome-Wide Study Annotation." G3 (Bethesda). 2016 Dec 7;6(12):4087-4095.
PMID: 27807048
PMCID: PMC5144977

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