RVPedigree

RVPedigree is an R package that enables genome-wide analysis of the association between a quantitative trait and autosomal region-based genetic variation, with the ability to accurately test for rare variant association with non-normally distributed traits and adjust for related individuals. It includes the calculation of kinship matrices, triaging for efficient use of computationally-intensive calculations, and a parallelization option for genome-wide analysis.

Topic

Genotype and phenotype;Genetic variation;Transcription factors and regulatory sites

Detail

  • Operation: Quantification;Gene expression QTL analysis;Genotyping

  • Software interface: Library

  • Language: R

  • License: GNU General Public License v3

  • Cost: Free

  • Version name: 0.0.3

  • Credit: The Canadian Institutes of Health Research, the Fonds de la Recherche en Santé au Québec.

  • Input: -

  • Output: -

  • Contact: Oualkacha Karim oualkacha.karim@uqam.ca

  • Collection: -

  • Maturity: Emerging

Publications

  • Software Application Profile: RVPedigree: a suite of family-based rare variant association tests for normally and non-normally distributed quantitative traits.
  • Oualkacha K, et al. Software Application Profile: RVPedigree: a suite of family-based rare variant association tests for normally and non-normally distributed quantitative traits. Software Application Profile: RVPedigree: a suite of family-based rare variant association tests for normally and non-normally distributed quantitative traits. 2016; 45:402-7. doi: 10.1093/ije/dyw047
  • https://doi.org/10.1093/ije/dyw047
  • PMID: 27085080
  • PMC: PMC5841637

Download and documentation

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