ExploreModelMatrix

DOI: 10.18129/B9.bioc.ExploreModelMatrix    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see ExploreModelMatrix.

Graphical Exploration of Design Matrices

Bioconductor version: 3.13

Given a sample data table and a design formula, ExploreModelMatrix generates an interactive application for exploration of the resulting design matrix. This can be helpful for interpreting model coefficients and constructing appropriate contrasts in (generalized) linear models. Static visualizations can also be generated.

Author: Charlotte Soneson [aut, cre] , Federico Marini [aut] , Michael Love [aut] , Florian Geier [aut] , Michael Stadler [aut]

Maintainer: Charlotte Soneson <charlottesoneson at gmail.com>

Installation

To install this package, start R (version "4.1") and enter:

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

BiocManager::install("ExploreModelMatrix")

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("ExploreModelMatrix")

 

HTML	R Script	ExploreModelMatrix
HTML	R Script	ExploreModelMatrix-deploy
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DifferentialExpression, ExperimentalDesign, Regression, Software
Version	1.4.0
In Bioconductor since	BioC 3.11 (R-4.0) (1.5 years)
License	MIT + file LICENSE
Depends
Imports	shiny (>= 1.5.0), shinydashboard, DT, cowplot, utils, dplyr, magrittr, tidyr, ggplot2, stats, methods, rintrojs, scales, tibble, MASS, limma, S4Vectors, shinyjs
LinkingTo
Suggests	testthat (>= 2.1.0), knitr, rmarkdown, htmltools, BiocStyle
SystemRequirements
Enhances
URL	https://github.com/csoneson/ExploreModelMatrix
BugReports	https://github.com/csoneson/ExploreModelMatrix/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	ExploreModelMatrix_1.4.0.tar.gz
Windows Binary	ExploreModelMatrix_1.4.0.zip
macOS 10.13 (High Sierra)	ExploreModelMatrix_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ExploreModelMatrix
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ExploreModelMatrix
Package Short Url	https://bioconductor.org/packages/ExploreModelMatrix/
Package Downloads Report	Download Stats