genphen

This package is for version 3.7 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see genphen.

A tool for quantification of associations between genotypes and phenotypes with Bayesian inference and statistical learning techniques


Bioconductor version: 3.7

Genetic association studies are an essential tool for studying the relationship between genotypes and phenotypes and thus for the discovery of disease-causing genetic variants. With genphen we propose a new method for conducting genetic association studies, using a combined approach which is based on both Bayesian inference and statistical learning techniques such as random forest and support vector machines.

Author: Simo Kitanovski

Maintainer: Simo Kitanovski <simo.kitanovski at uni-due.de>

Citation (from within R, enter citation("genphen")):

Installation

To install this package, start R (version "3.5") and enter:


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

BiocManager::install("genphen")

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("genphen")
genphen overview PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Bayesian, Classification, FeatureExtraction, Genetics, GenomeWideAssociation, Regression, SequenceMatching, Sequencing, Software, SupportVectorMachine
Version 1.8.0
In Bioconductor since BioC 3.3 (R-3.3) (8 years)
License GPL (>= 2)
Depends R (>= 3.4), stats, graphics, e1071, Biostrings, rstan, ranger, parallel, foreach, doParallel
Imports
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Package Archives

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

Source Package genphen_1.8.0.tar.gz
Windows Binary genphen_1.8.0.zip
Mac OS X 10.11 (El Capitan) genphen_1.8.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/genphen
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/genphen
Package Short Url https://bioconductor.org/packages/genphen/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.7 Source Archive