tidySpatialExperiment
This is the development version of tidySpatialExperiment; for the stable release version, see tidySpatialExperiment.
All Bioconductor versions of tidySpatialExperiment
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19
SpatialExperiment with tidy principles
Bioconductor version: 3.24 · Package version: 1.9.0
tidySpatialExperiment provides a bridge between the SpatialExperiment package and the tidyverse ecosystem. It creates an invisible layer that allows you to interact with a SpatialExperiment object as if it were a tibble; enabling the use of functions from dplyr, tidyr, ggplot2 and plotly. But, underneath, your data remains a SpatialExperiment object.
Author: William Hutchison [aut, cre] 
, Stefano Mangiola [aut]
Maintainer: William Hutchison <hutchison.w at wehi.edu.au>
Citation
From within R, enter citation("tidySpatialExperiment"):
William Hutchison, Stefano Mangiola. tidySpatialExperiment: SpatialExperiment with tidy principles. doi:10.18129/B9.bioc.tidySpatialExperiment, R package version 1.9.0, https://bioconductor.org/packages/tidySpatialExperiment.
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("tidySpatialExperiment")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.9.0 |
| License | GPL (>= 3) |
| URL | https://github.com/william-hutchison/tidySpatialExperiment https://william-hutchison.github.io/tidySpatialExperiment/ |
| Bug Reports | https://github.com/william-hutchison/tidySpatialExperiment/issues |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.19 (R-4.4) (2 years) |
| Downloads rank | 1566 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | GeneExpression, Infrastructure, RNASeq, Sequencing, SingleCell, Software, Spatial, Transcriptomics |
| Package Short Url | https://bioconductor.org/packages/tidySpatialExperiment/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("tidySpatialExperiment")| Overview | HTML | R Script |
| Reference Manual |
Download
Follow the installation instructions to use this package in your R session.
| Source package | tidySpatialExperiment_1.9.0.tar.gz |
| Windows binary (x86_64) | tidySpatialExperiment_1.9.0.zip |
| macOS binary (arm64) | tidySpatialExperiment_1.9.0.tgz |
| macOS binary (x86_64) | tidySpatialExperiment_1.9.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/tidySpatialExperiment |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/tidySpatialExperiment |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 4.3.0), SpatialExperiment, tidySingleCellExperiment, ttservice
Imports: SummarizedExperiment, SingleCellExperiment, BiocGenerics, S4Vectors, methods, utils, pkgconfig, tibble, dplyr, tidyr, ggplot2 (>= 4.0.0), plotly, rlang, purrr, stringr, vctrs, tidyselect, pillar, cli, fansi, lifecycle, magick, tidygate (>= 1.0.13), shiny
Suggests: BiocStyle, testthat, knitr, markdown, scater, igraph, cowplot, DropletUtils, tidySummarizedExperiment
Reverse dependencies
Imports Me (1): tidyomics