BVS: Bayesian Variant Selection: Bayesian Model Uncertainty Techniques for Genetic Association Studies
Version 4.12.1

The functions in this package focus on analyzing case-control association studies involving a group of genetic variants. In particular, we are interested in modeling the outcome variable as a function of a multivariate genetic profile using Bayesian model uncertainty and variable selection techniques. The package incorporates functions to analyze data sets involving common variants as well as extensions to model rare variants via the Bayesian Risk Index (BRI) as well as haplotypes. Finally, the package also allows the incorporation of external biological information to inform the marginal inclusion probabilities via the iBMU.

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AuthorMelanie Quintana <maw27.wilson@gmail.com>
Date of publication2012-08-09 17:07:48
MaintainerMelanie Quintana <maw27.wilson@gmail.com>
LicenseUnlimited
Version4.12.1
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("BVS")

Man pages

BVS-package: Bayesian Variant Selection: Bayesian Model Uncertainty...
enumerateBVS: Function to Enumerate all models for Bayesian Variant...
fitBVS: Function to calculate fitness for each model for Bayesian...
hapBVS: Function to estimate and report a set of haplotypes given a...
InformBVS.I.out: Example Output From 100K iterations of sampleBVS with...
InformBVS.NI.out: Example Output From 100K iterations of sampleBVS with...
InformData: PNAT Study-based Simulation: Informative Data.
Informresults.I: Example Summary From 100K iterations of sampleBVS with...
Informresults.NI: Example Summary From 100K iterations of sampleBVS with...
plotRVS: Image Plots for top Variant and Region Inclusions
RareBVS.out: Example Output From 100K iterations of sampleBVS with Rare...
RareData: Simulated Example Rare Variant data set.
RareResults: Example Summary From 100K iterations of sampleBVS with Rare...
sampleBVS: Sampling Algorithm for Bayesian Variant Selection Methods
summaryBVS: Calculates Posterior Summaries for BVS Methods

Functions

BVS Man page
BVS-package Man page
InformBVS.I.out Man page
InformBVS.NI.out Man page
InformData Man page
Informresults.I Man page
Informresults.NI Man page
RareBVS.out Man page
RareData Man page
RareResults Man page
enumerateBVS Man page Source code
fitBVS Man page Source code
hapBVS Man page Source code
plotBVS Man page Source code
sampleBVS Man page Source code
summaryBVS Man page Source code

Files

MD5
R
R/summaryBVS.R
R/sampleBVS.R
R/plotBVS.R
R/hapBVS.R
R/fitBVS.R
R/enumerateBVS.R
NAMESPACE
man
man/summaryBVS.Rd
man/sampleBVS.Rd
man/RareResults.Rd
man/RareData.Rd
man/RareBVS.out.Rd
man/plotRVS.Rd
man/Informresults.NI.Rd
man/Informresults.I.Rd
man/InformData.Rd
man/InformBVS.NI.out.Rd
man/InformBVS.I.out.Rd
man/hapBVS.Rd
man/fitBVS.Rd
man/enumerateBVS.Rd
man/BVS-package.Rd
DESCRIPTION
data
data/RareResults.rda
data/RareData.rda
data/RareBVS.out.rda
data/Informresults.NI.rda
data/Informresults.I.rda
data/InformData.rda
data/InformBVS.NI.out.rda
data/InformBVS.I.out.rda
data/datalist
ChangeLog
BVS documentation built on May 19, 2017, 10:54 a.m.