Registration and Call for Abstracts Open for Bioc2024


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

Integrating SpatialExperiment with Simple Features in sf

Bioconductor version: Development (3.19)

A new S4 class integrating Simple Features with the R package sf to bring geospatial data analysis methods based on vector data to spatial transcriptomics. Also implements management of spatial neighborhood graphs and geometric operations. This pakage builds upon SpatialExperiment and SingleCellExperiment, hence methods for these parent classes can still be used.

Author: Lambda Moses [aut, cre] , Alik Huseynov [aut] , Lior Pachter [aut, ths]

Maintainer: Lambda Moses <dlu2 at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


Reference Manual PDF


biocViews DataRepresentation, Software, Spatial, Transcriptomics
Version 1.5.2
In Bioconductor since BioC 3.16 (R-4.2) (1.5 years)
License Artistic-2.0
Depends R (>= 4.2.0)
Imports BiocGenerics, BiocNeighbors, BiocParallel, data.table, DropletUtils, EBImage, grDevices, lifecycle, Matrix, methods, rjson, rlang, S4Vectors, sf, sfheaders, SingleCellExperiment, SpatialExperiment, spdep (>= 1.1-7), SummarizedExperiment, stats, terra, utils
System Requirements GDAL (>= 3.8.0)
Bug Reports
See More
Suggests arrow, BiocStyle, knitr, RBioFormats, rhdf5, rmarkdown, SFEData(>= 1.5.3), testthat (>= 3.0.0), Voyager, xml2
Linking To
Depends On Me
Imports Me TENxXeniumData, Voyager
Suggests Me SFEData
Links To Me
Build Report Build Report

Package Archives

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

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone
Source Repository (Developer Access) git clone
Package Short Url
Package Downloads Report Download Stats