DOI: 10.18129/B9.bioc.Spaniel  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see Spaniel.

Spatial Transcriptomics Analysis

Bioconductor version: 3.17

Spaniel includes a series of tools to aid the quality control and analysis of Spatial Transcriptomics data. Spaniel can import data from either the original Spatial Transcriptomics system or 10X Visium technology. The package contains functions to create a SingleCellExperiment Seurat object and provides a method of loading a histologial image into R. The spanielPlot function allows visualisation of metrics contained within the S4 object overlaid onto the image of the tissue.

Author: Rachel Queen [aut, cre]

Maintainer: Rachel Queen <rachel.queen at>

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


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


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


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biocViews Clustering, Coverage, DataImport, DataRepresentation, GeneExpression, Infrastructure, Normalization, Preprocessing, QualityControl, RNASeq, Sequencing, SingleCell, Software, Transcriptomics, Visualization
Version 1.14.0
In Bioconductor since BioC 3.10 (R-3.6) (4 years)
License MIT + file LICENSE
Depends R (>= 4.0)
Imports Seurat, SingleCellExperiment, SummarizedExperiment, dplyr, methods, ggplot2, scater(>= 1.13), scran, igraph, shiny, jpeg, magrittr, utils, S4Vectors, DropletUtils, jsonlite, png
Suggests knitr, rmarkdown, testthat, devtools
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