SpaceTrooper

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

SpaceTrooper performs Quality Control analysis of Image-Based spatial

Platform availability badge Ranking badge Support activity badge Years in BioConductor badge Build results badge Last commit badge Dependency count badge

DOI: 10.18129/B9.bioc.SpaceTrooper

Bioconductor version: Development (3.23)

SpaceTrooper performs Quality Control analysis using data driven GLM models of Image-Based spatial data, providing exploration plots, QC metrics computation, outlier detection. It implements a GLM strategy for the detection of low quality cells in imaging-based spatial data (Transcriptomics and Proteomics). It additionally implements several plots for the visualization of imaging based polygons through the ggplot2 package.

Author: Dario Righelli [aut, cre] ORCID iD ORCID: 0000-0003-1504-3583 , Benedetta Banzi [aut], Oriana Romano [ctb], Matteo Merchionni [ctb], Mattia Forcato [ctb], Silvio Bicciato [aut], Davide Risso [ctb]

Maintainer: Dario Righelli <dario.righelli at gmail.com>

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

Installation

To install this package, start R (version "4.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("SpaceTrooper")

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