SEraster
This is the released version of SEraster; for the devel version, see SEraster.
All Bioconductor versions of SEraster
3.24 (devel), 3.23 (release), 3.22, 3.21
Rasterization Preprocessing Framework for Scalable Spatial Omics Data Analysis
Bioconductor version: 3.23 · Package version: 1.4.0
SEraster is a rasterization preprocessing framework that aggregates cellular information into spatial pixels to reduce resource requirements for spatial omics data analysis. SEraster reduces the number of spatial points in spatial omics datasets for downstream analysis through a process of rasterization where single cells’ gene expression or cell-type labels are aggregated into equally sized pixels based on a user-defined resolution. SEraster is built on an R/Bioconductor S4 class called SpatialExperiment. SEraster can be incorporated with other packages to conduct downstream analyses for spatial omics datasets, such as detecting spatially variable genes.
Author: Gohta Aihara [aut, cre] 
, Mayling Chen [aut] , Lyla Atta [aut] , Jean Fan [aut, rev]
Maintainer: Gohta Aihara <gohta.aihara at gmail.com>
Citation
From within R, enter citation("SEraster"):
Gohta Aihara, Mayling Chen, Lyla Atta, Jean Fan. SEraster: Rasterization Preprocessing Framework for Scalable Spatial Omics Data Analysis. doi:10.18129/B9.bioc.SEraster, R package version 1.4.0, https://bioconductor.org/packages/SEraster.
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")
BiocManager::install("SEraster")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.4.0 |
| License | GPL-3 |
| URL | https://github.com/JEFworks-Lab/SEraster |
| Bug Reports | https://github.com/JEFworks-Lab/SEraster/issues |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.21 (R-4.5) (1 year) |
| Downloads rank | 2162 of 2,418 |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | GeneExpression, Preprocessing, SingleCell, Software, Spatial, Transcriptomics |
| Package Short Url | https://bioconductor.org/packages/SEraster/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("SEraster")| Getting Started With SEraster | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | SEraster_1.4.0.tar.gz |
| Windows binary (x86_64) | SEraster_1.4.0.zip |
| macOS binary (arm64) | SEraster_1.4.0.tgz |
| macOS binary (x86_64) | SEraster_1.4.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/SEraster |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/SEraster |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 4.5.0)
Imports: BiocParallel, ggplot2, Matrix, methods, rearrr, sf, SpatialExperiment, SummarizedExperiment
Suggests: CooccurrenceAffinity, nnSVG, testthat (>= 3.0.0), knitr, rmarkdown, BiocManager, remotes