ExploreModelMatrix

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11

Graphical Exploration of Design Matrices

Bioconductor version: Development (3.24)

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

Maintainer: Charlotte Soneson <charlottesoneson at gmail.com>

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

Charlotte Soneson, Federico Marini, Michael Love, Florian Geier, Michael Stadler. ExploreModelMatrix: Graphical Exploration of Design Matrices. doi:10.18129/B9.bioc.ExploreModelMatrix, R package version 1.25.0, https://bioconductor.org/packages/ExploreModelMatrix.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, ExperimentalDesign, Regression, ShinyApps, Software
Version	1.25.0
In Bioconductor since	BioC 3.11 (R-4.0) (6.5 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, rlang
System Requirements
URL	https://github.com/csoneson/ExploreModelMatrix
Bug Reports	https://github.com/csoneson/ExploreModelMatrix/issues

Suggests	testthat (>= 2.1.0), knitr, rmarkdown, htmltools, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me	msqrob2
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	ExploreModelMatrix_1.25.0.tar.gz
Windows Binary (x86_64)	ExploreModelMatrix_1.25.0.zip
macOS Binary (big-sur-x86_64)	ExploreModelMatrix_1.25.0.tgz
macOS Binary (sonoma-arm64)	ExploreModelMatrix_1.25.0.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