title: Software Application Profile: RVPedigree: a suite of family-based rare variant association tests for normally and non-normally distributed quantitative traits.
abstract: RVPedigree (Rare Variant association tests in Pedigrees) implements a suite of programs facilitating genome-wide analysis of association between a quantitative trait and autosomal region-based genetic variation. The main features here are the ability to appropriately test for association of rare variants with non-normally distributed quantitative traits, and also to appropriately adjust for related individuals, either from families or from population structure and cryptic relatedness.
  
  
  
  RVPedigree is available as an R package.
  
  
  
  The package includes calculation of kinship matrices, various options for coping with non-normality, three different ways of estimating statistical significance incorporating triaging to enable efficient use of the most computationally-intensive calculations, and a parallelization option for genome-wide analysis.
  
  
  
  The software is available from the Comprehensive R Archive Network [CRAN.R-project.org] under the name 'RVPedigree' and at [https://github.com/GreenwoodLab]. It has been published under General Public License (GPL) version 3 or newer.
authors.affiliation: Départment de mathématiques, Université du Québec à Montréal, QC, Canada celia.greenwood@mcgill.ca.
authors.forename: Karim
authors.initials: K
authors.lastname: Oualkacha
authors.affiliation: Département de mathématiques et de statistique, Université Laval, Québec, QC, Canada.
authors.forename: Lajmi
authors.initials: L
authors.lastname: Lakhal-Chaieb
authors.affiliation: Lady Davis Institute, Jewish General Hospital, Montréal, QC, Canada Departments of Oncology, Epidemiology, Biostatistics & Occupational Health, and Human Genetics, McGill University, Montreal, QC, Canada Ludmer Centre for Neuroinformatics and Mental Health, Montreal, QC, Canada celia.greenwood@mcgill.ca.
authors.forename: Celia Mt
authors.initials: CM
authors.lastname: Greenwood
mesh_terms: D005190:Family; D014644:Genetic Variation; D055106:Genome-Wide Association Study; D006801:Humans; D010375:Pedigree; D040641:Quantitative Trait Loci; D012984:Software
keywords: kernel tests; kinship; kurtosis; mixed models; pedigrees; region-based tests