immunedynamics/spectre repository overview

Spectre is an R package and computational toolkit that enables comprehensive end-to-end integration, exploration, and analysis of high-dimensional cytometry or imaging data from different batches or experiments. Spectre streamlines the analytical stages of raw data pre-processing, batch alignment, data integration, clustering, dimensionality reduction, visualisation and population labelling, as well as quantitative and statistical analysis; with a simple, clear, and modular design of analysis workflows, that can be utilised by data and laboratory scientists. We also provide workflow instructions for replicating many of our analysis approaches in programs such as FlowJo. Along with flow, spectral, or mass cytometry data, Spectre enables spatial analysis of high-dimensional imaging data, such as Imaging Mass Cytometry (IMC).

For more information, see our publication: Ashhurst TM, Marsh-Wakefield F, Putri GH et al. (2021). Cytometry A. DOI: 10.1002/cyto.a.24350⁠.