SNPassoc: An R package to perform whole genome association studies

Juan Ramon González, Lluís Armengol, Xavier Solé, Elisabet Guinó, Josep M. Mercader, Xavier Estivill, Víctor Moreno

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479 Citations (Scopus)

Abstract

Summary: The popularization of large-scale genotyping projects has led to the widespread adoption of genetic association studies as the tool of choice in the search for single nucleotide polymorphisms (SNPs) underlying susceptibility to complex diseases. Although the analysis of individual SNPs is a relatively trivial task, when the number is large and multiple genetic models need to be explored it becomes necessary a tool to automate the analyses. In order to address this issue, we developed SNPassoc, an R package to carry out most common analyses in whole genome association studies. These analyses include descriptive statistics and exploratory analysis of missing values, calculation of Hardy-Weinberg equilibrium, analysis of association based on generalized linear models (either for quantitative or binary traits), and analysis of multiple SNPs (haplotype and epistasis analysis).

Original languageEnglish
Pages (from-to)644-645
Number of pages2
JournalBioinformatics
Volume23
Issue number5
DOIs
Publication statusPublished - 1 Mar 2007

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ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

Cite this

González, J. R., Armengol, L., Solé, X., Guinó, E., Mercader, J. M., Estivill, X., & Moreno, V. (2007). SNPassoc: An R package to perform whole genome association studies. Bioinformatics, 23(5), 644-645. https://doi.org/10.1093/bioinformatics/btm025