recipe bioconductor-spaniel

Spatial Transcriptomics Analysis

Homepage

https://bioconductor.org/packages/3.11/bioc/html/Spaniel.html

License

MIT + file LICENSE

Recipe

/bioconductor-spaniel/meta.yaml

Spaniel includes a series of tools to aid the quality control and analysis of Spatial Transcriptomics data. The package contains functions to create either a Seurat object or SingleCellExperiment from a count matrix and spatial barcode file 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.

package bioconductor-spaniel

Versions

1.2.0-0,  1.0.0-0

Depends

• bioconductor-s4vectors >=0.26.0,<0.27.0

• bioconductor-scater >=1.16.0,<1.17.0

• bioconductor-singlecellexperiment >=1.10.0,<1.11.0

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• r-base >=4.0,<4.1.0a0

• r-dplyr

• r-ggplot2

• r-jpeg

• r-magrittr

• r-seurat

• r-shiny

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-spaniel

and update with:

conda update bioconductor-spaniel

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-spaniel:<tag>

(see bioconductor-spaniel/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-spaniel/README.html)