DESCRIPTION

Package: RVS
Type: Package
Title: Computes estimates of the probability of related individuals sharing a
    rare variant
Version: 1.25.1
Date: 2024-02-14
Author: Alexandre Bureau, Ingo Ruczinski, Samuel Younkin, Thomas Sherman
Maintainer: Alexandre Bureau <alexandre.bureau@fmed.ulaval.ca>
Description: Rare Variant Sharing (RVS) implements tests of association and linkage between rare genetic variant genotypes and a dichotomous phenotype, e.g. a disease status, in family samples. The tests are based on probabilities of rare variant sharing by relatives under the null hypothesis of absence of linkage and association between the rare variants and the phenotype and apply to single variants or multiple variants in a region (e.g. gene-based test).
License: GPL-2
Depends:
    R (>= 3.5.0)
Imports:
    GENLIB,
    gRain,
    snpStats,
    kinship2,
    methods,
    stats,
    utils,
    R.utils
Suggests:
    knitr,
    testthat,
    rmarkdown,
    BiocStyle,
    VariantAnnotation
VignetteBuilder: knitr
LazyData: true
RoxygenNote: 7.1.0
Encoding: UTF-8
biocViews: ImmunoOncology, Genetics, GenomeWideAssociation, VariantDetection, ExomeSeq, WholeGenome
Collate:
    'RVgene.R'
    'pedigree-methods.R'
    'RVsharing.R'
    'documentation.R'
    'grainNetworkHelper.R'
    'monteCarloMethods.R'
    'multipleFamilyCalculations.R'
    'multipleFamilyCalculationsBackend.R'
    'relatedFoundersCorrection.R'
    'sharingProbabilityCalculations.R'
    'sharingProbabilityCalculationsSplitting.R'