To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("semisup")

In most cases, you don't need to download the package archive at all.

semisup

DOI: 10.18129/B9.bioc.semisup    

Detecting SNPs with interactive effects on a quantitative trait

Bioconductor version: Release (3.6)

This R packages moves away from testing interaction terms, and move towards testing whether an individual SNP is involved in any interaction. This reduces the multiple testing burden to one test per SNP, and allows for interactions with unobserved factors. Analysing one SNP at a time, it splits the individuals into two groups, based on the number of minor alleles. If the quantitative trait differs in mean between the two groups, the SNP has a main effect. If the quantitative trait differs in distribution between some individuals in one group and all other individuals, it possibly has an interactive effect. Implicitly, the membership probabilities may suggest potential interacting variables.

Author: Armin Rauschenberger [aut, cre]

Maintainer: Armin Rauschenberger <a.rauschenberger at vumc.nl>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("semisup")

Documentation

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

browseVignettes("semisup")

 

PDF R Script semisup
HTML pkgdown
HTML pkgdown
PDF   Reference Manual
Text   NEWS

Details

biocViews Classification, Clustering, DNASeq, Genetics, GenomicVariation, Microarray, MultipleComparison, SNP, Software, SomaticMutation
Version 1.2.0
In Bioconductor since BioC 3.5 (R-3.4) (0.5 years)
License GPL-3
Depends R (>= 3.0.0)
Imports SummarizedExperiment, VGAM
LinkingTo
Suggests knitr, testthat
SystemRequirements
Enhances
URL https://github.com/rauschenberger/semisup
BugReports https://github.com/rauschenberger/semisup/issues
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Source Package semisup_1.2.0.tar.gz
Windows Binary semisup_1.2.0.zip
Mac OS X 10.11 (El Capitan) semisup_1.2.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/semisup
Package Short Url http://bioconductor.org/packages/semisup/
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