tidyomics

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19

Easily install and load the tidyomics ecosystem

Bioconductor version: Development (3.24)

The tidyomics ecosystem is a set of packages for ’omic data analysis that work together in harmony; they share common data representations and API design, consistent with the tidyverse ecosystem. The tidyomics package is designed to make it easy to install and load core packages from the tidyomics ecosystem with a single command.

Author: Stefano Mangiola [aut, cre] ORCID: 0000-0001-7474-836X , Michael Love [aut] ORCID: 0000-0001-8401-0545 , William Hutchison [aut] ORCID: 0009-0001-6242-4269

Maintainer: Stefano Mangiola <mangiolastefano at gmail.com>

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

Stefano Mangiola, Michael Love, William Hutchison. tidyomics: Easily install and load the tidyomics ecosystem. doi:10.18129/B9.bioc.tidyomics, R package version 1.9.0, https://bioconductor.org/packages/tidyomics.

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("tidyomics")

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("tidyomics")

Loading the tidyomics ecosystem	HTML	R Script
Reference Manual	PDF
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	AssayDomain, Clustering, DifferentialExpression, GeneExpression, Infrastructure, Normalization, QualityControl, RNASeq, Sequencing, Software, Transcription, Transcriptomics
Version	1.9.0
In Bioconductor since	BioC 3.19 (R-4.4) (2.5 years)
License	MIT + file LICENSE
Depends	R (>= 4.2)
Imports	tidySummarizedExperiment, tidySingleCellExperiment, tidySpatialExperiment, tidyseurat, plyranges, purrr, rlang, stringr, cli
System Requirements
URL	https://github.com/tidyomics/tidyomics
Bug Reports	https://github.com/tidyomics/tidyomics/issues

Suggests	utils, tidyr, dplyr, tibble, ggplot2, mockr (>= 0.2.0), knitr (>= 1.41), rmarkdown (>= 2.20), testthat (>= 3.1.6), nullranges, tidybulk, plyinteractions
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	tidyomics_1.9.0.tar.gz
Windows Binary (x86_64)	tidyomics_1.9.0.zip
macOS Binary (big-sur-x86_64)	tidyomics_1.9.0.tgz
macOS Binary (sonoma-arm64)	tidyomics_1.9.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/tidyomics
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/tidyomics
Package Short Url	https://bioconductor.org/packages/tidyomics/
Package Downloads Report	Download Stats