DOI: 10.18129/B9.bioc.genphen    

This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see genphen.

A tool for quantification of associations between genotypes and phenotypes in genome wide association studies (GWAS) with Bayesian inference and statistical learning

Bioconductor version: 3.12

Genetic association studies are an essential tool for studying the relationship between genotypes and phenotypes. With genphen we can jointly study multiple phenotypes of different types, by quantifying the association between different genotypes and each phenotype using a hybrid method which uses statistical learning techniques such as random forest and support vector machines, and Bayesian inference using hierarchical models.

Author: Simo Kitanovski [aut, cre]

Maintainer: Simo Kitanovski <simo.kitanovski at>

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


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PDF R Script genphen overview
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biocViews Bayesian, Classification, FeatureExtraction, Genetics, GenomeWideAssociation, Regression, SequenceMatching, Sequencing, Software, SupportVectorMachine
Version 1.18.0
In Bioconductor since BioC 3.3 (R-3.3) (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
Suggests testthat, ggplot2, gridExtra, ape, ggrepel, knitr, reshape, xtable
Depends On Me
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