Software Application Profile: RVPedigree: a suite of family-based rare variant association tests for normally and non-normally distributed quantitative traits.

Abstract:

MOTIVATION: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. IMPLEMENTATION:RVPedigree is available as an R package. GENERAL FEATURES: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. AVAILABILITY: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.

journal_name

Int J Epidemiol

authors

Oualkacha K,Lakhal-Chaieb L,Greenwood CM

doi

10.1093/ije/dyw047

subject

Has Abstract

pub_date

2016-04-01 00:00:00

pages

402-7

issue

2

eissn

0300-5771

issn

1464-3685

pii

dyw047

journal_volume

45

pub_type

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