Spaniel
Spatial Transcriptomics Analysis
Bioconductor version: 3.23 · Package version: 1.26.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Spaniel")Details
| Maintainer | Rachel Queen <rachel.queen@newcastle.ac.uk> |
| Author | Rachel Queen [aut, cre] |
| License | MIT + file LICENSE |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | Clustering, Coverage, DataImport, DataRepresentation, GeneExpression, Infrastructure, Normalization, Preprocessing, QualityControl, RNASeq, Sequencing, SingleCell, Software, Transcriptomics, Visualization |
| Package Short Url | https://bioconductor.org/packages/Spaniel/ |
Citation
From within R, enter citation("Spaniel"):
Rachel Queen. Spaniel: Spatial Transcriptomics Analysis. doi:10.18129/B9.bioc.Spaniel, R package version 1.26.0, https://bioconductor.org/packages/Spaniel.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | Spaniel_1.26.0.tar.gz |
| Windows binary (x86_64) | Spaniel_1.26.0.zip |
| macOS binary (arm64) | Spaniel_1.26.0.tgz |
| macOS binary (x86_64) | Spaniel_1.26.0.tgz |
Dependencies
Depends: R (>= 4.0)
Imports: Seurat, SingleCellExperiment, SummarizedExperiment, dplyr, methods, ggplot2, scater (>= 1.13), scran, igraph, shiny, jpeg, magrittr, utils, S4Vectors, DropletUtils, jsonlite, png