genphen

DOI: 10.18129/B9.bioc.genphen    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This is the development version of genphen; for the stable release version, see genphen.

genphen: tool for quantification of genotype-phenotype associations in genome wide association studies (GWAS)

Bioconductor version: Development (3.15)

Genetic association studies help us discover relationships between genotypes and phenotype. genphen is a computational tool for quantification of genotype-phenotype associations using a hybrid approach based on statistical learning techniques and probabilistic models that are analyzed computationally by Bayes inference.

Author: Simo Kitanovski [aut, cre]

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

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

Installation

To install this package, start R (version "4.2") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")

 

PDF R Script genphen overview
PDF   Reference Manual
Text   NEWS

Details

biocViews Bayesian, Classification, FeatureExtraction, Genetics, GenomeWideAssociation, Regression, SequenceMatching, Sequencing, Software, SupportVectorMachine
Version 1.23.1
In Bioconductor since BioC 3.3 (R-3.3) (5.5 years)
License GPL (>= 2)
Depends R (>= 3.5.0), Rcpp (>= 0.12.17), methods, stats, graphics
Imports rstan (>= 2.17.3), ranger, parallel, foreach, doParallel, e1071, Biostrings, rPref
LinkingTo
Suggests testthat, ggplot2, gridExtra, ape, ggrepel, knitr, reshape, xtable
SystemRequirements
Enhances
URL
BugReports https://github.com/snaketron/genphen/issues
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 genphen_1.23.1.tar.gz
Windows Binary
macOS 10.13 (High Sierra) genphen_1.23.1.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

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: