omXplore
This is the development version of omXplore; for the stable release version, see omXplore.
Vizualization tools for 'omics' datasets with R
Bioconductor version: Development (3.21)
This package contains a collection of functions (written as shiny modules) for the visualisation and the statistical analysis of omics data. These plots can be displayed individually or embedded in a global Shiny module. Additionaly, it is possible to integrate third party modules to the main interface of the package omXplore.
Author: Samuel Wieczorek [aut, cre] (ORCID:
Maintainer: Samuel Wieczorek <samuel.wieczorek at cea.fr>
citation("omXplore")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("omXplore")
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("omXplore")| Adding third party plots | HTML | R Script |
| omXplore | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataRepresentation, GUI, MassSpectrometry, QualityControl, ShinyApps, Software |
| Version | 1.1.0 |
| In Bioconductor since | BioC 3.20 (R-4.4) (< 6 months) |
| License | Artistic-2.0 |
| Depends | R (>= 4.4.0), methods |
| Imports | shiny, MSnbase, PSMatch, SummarizedExperiment, MultiAssayExperiment, shinyBS, shinyjs, shinyjqui, DT, RColorBrewer, gplots, highcharter, visNetwork, tibble, grDevices, stats, utils, htmlwidgets, vioplot, graphics, FactoMineR, dendextend, dplyr, factoextra, tidyr |
| System Requirements | |
| URL | https://github.com/prostarproteomics/omXplore https://prostarproteomics.github.io/omXplore/ |
| Bug Reports | https://github.com/prostarproteomics/omXplore/issues |
See More
| Suggests | knitr, rmarkdown, BiocStyle, testthat, Matrix, graph |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | omXplore_1.1.0.tar.gz |
| Windows Binary (x86_64) | omXplore_1.1.0.zip |
| macOS Binary (x86_64) | omXplore_1.1.0.tgz |
| macOS Binary (arm64) | omXplore_1.1.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/omXplore |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/omXplore |
| Bioc Package Browser | https://code.bioconductor.org/browse/omXplore/ |
| Package Short Url | https://bioconductor.org/packages/omXplore/ |
| Package Downloads Report | Download Stats |