RVS

DOI: 10.18129/B9.bioc.RVS    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see RVS.

Computes estimates of the probability of related individuals sharing a rare variant

Bioconductor version: 3.9

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).

Author: Alexandre Bureau, Ingo Ruczinski, Samuel Younkin, Thomas Sherman

Maintainer: Thomas Sherman <tsherma4 at jhu.edu>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("RVS")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("RVS")

 

HTML	R Script	The RVS Package
PDF		Reference Manual
Text		NEWS

Details

biocViews	ExomeSeq, Genetics, GenomeWideAssociation, ImmunoOncology, Software, VariantDetection, WholeGenome
Version	1.6.0
In Bioconductor since	BioC 3.6 (R-3.4) (2 years)
License	GPL-2
Depends	R (>= 3.5.0)
Imports	GENLIB, gRain, snpStats, kinship2, methods, stats, utils
LinkingTo
Suggests	knitr, testthat, rmarkdown, BiocStyle, VariantAnnotation
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	RVS_1.6.0.tar.gz
Windows Binary	RVS_1.6.0.zip
Mac OS X 10.11 (El Capitan)	RVS_1.6.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/RVS
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/RVS
Package Short Url	https://bioconductor.org/packages/RVS/
Package Downloads Report	Download Stats