On this page we provide links to protocols, software, and other resources written or collected by members of the team and our collaborators, for flow cytometry, spectral cytometry, mass cytometry (CyTOF), Imaging Mass Cytometry (IMC), computational analysis, and spatial analysis.
Cytometry and single-cell
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Sample preparation Protocols and guidelines for cell isolation and sample preparation for cytometry or single-cell assays. GO TO PAGE
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Flow and spectral cytometry Flow and spectral cytometry protocols, including panel design, voltages, spillover, and spreading error. GO TO PAGE
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Mass cytometry (CyTOF) Mass cytometry (CyTOF) protocols, including a links to a range of protocols from 'Mass Cytometry: Methods and Protocols (McGuire & Ashhurst). GO TO PAGE
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Computational analysis of single-cell cytometry data Here we provide resources to facilitate computational analysis of high-dimensional cytometry data, including Spectre, an R package that enables comprehensive end-to-end integration and analysis of high-dimensional cytometry data from different batches or experiments. GO TO PAGE
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Imaging
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Imaging Mass Cytometry (IMC) Imaging Mass Cytometry (IMC) protocols. GO TO PAGE
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Spatial analysis of Imagin Mass Cytometry (IMC) data Here we provide resources for cell segmentation and spatial analysis of IMC data. GO TO PAGE
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