TrigosTeam/SPIAT: Spatial Image Analysis of Tissues

SPIAT (**Sp**atial **I**mage **A**nalysis of **T**issues) is an R package with a suite of data processing, quality control, visualization and data analysis tools. SPIAT is compatible with data generated from single-cell spatial proteomics platforms (e.g. OPAL, CODEX, MIBI, cellprofiler). SPIAT reads spatial data in the form of X and Y coordinates of cells, marker intensities and cell phenotypes. SPIAT includes six analysis modules that allow visualization, calculation of cell colocalization, categorization of the immune microenvironment relative to tumor areas, analysis of cellular neighborhoods, and the quantification of spatial heterogeneity, providing a comprehensive toolkit for spatial data analysis.

Getting started

Package details

Bioconductor views BiomedicalInformatics CellBiology Clustering DataImport ImmunoOncology QualityControl SingleCell Software Spatial Visualization
Maintainer
LicenseArtistic-2.0 + file LICENSE
Version1.7.2
URL https://trigosteam.github.io/SPIAT/
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("TrigosTeam/SPIAT")
TrigosTeam/SPIAT documentation built on Aug. 22, 2024, 7:50 p.m.