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ExploreModelMatrix

This is the released version of ExploreModelMatrix; for the devel version, see ExploreModelMatrix.

Graphical Exploration of Design Matrices


Bioconductor version: Release (3.21)

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] ORCID iD ORCID: 0000-0003-3833-2169 , Federico Marini [aut] ORCID iD ORCID: 0000-0003-3252-7758 , Michael Love [aut] ORCID iD ORCID: 0000-0001-8401-0545 , Florian Geier [aut] ORCID iD ORCID: 0000-0002-9076-9264 , Michael Stadler [aut] ORCID iD ORCID: 0000-0002-2269-4934

Maintainer: Charlotte Soneson <charlottesoneson at gmail.com>

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

Installation

To install this package, start R (version "4.5") and enter:

 if (!require("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")
ExploreModelMatrixHTMLR Script
ExploreModelMatrix-deployHTMLR Script
Reference ManualPDF
NEWSText
LICENSEText

Details

biocViewsDifferentialExpression, ExperimentalDesign, Regression, ShinyApps, Software
Version1.20.0
In Bioconductor sinceBioC 3.11 (R-4.0) (5 years)
LicenseMIT + file LICENSE
Depends
Importsshiny (>= 1.5.0), shinydashboard, DT, cowplot, utils, dplyr, magrittr, tidyr, ggplot2, stats, methods, rintrojs, scales, tibble, MASS, limma, S4Vectors, shinyjs
System Requirements
URLhttps://github.com/csoneson/ExploreModelMatrix
Bug Reportshttps://github.com/csoneson/ExploreModelMatrix/issues
See More
Suggeststestthat (>= 2.1.0), knitr, rmarkdown, htmltools, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build ReportBuild Report

Package Archives

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

Source PackageExploreModelMatrix_1.20.0.tar.gz
Windows Binary (x86_64) ExploreModelMatrix_1.20.0.zip
macOS Binary (x86_64)ExploreModelMatrix_1.20.0.tgz
macOS Binary (arm64)ExploreModelMatrix_1.20.0.tgz
Source Repositorygit clone https://git.bioconductor.org/packages/ExploreModelMatrix
Source Repository (Developer Access)git clone git@git.bioconductor.org:packages/ExploreModelMatrix
Bioc Package Browserhttps://code.bioconductor.org/browse/ExploreModelMatrix/
Package Short Urlhttps://bioconductor.org/packages/ExploreModelMatrix/
Package Downloads ReportDownload Stats
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