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CyCadas: accelerating interactive annotation and analysis of clustered cytometry data.

Oliver Hunewald1,2, Agnieszka Demczuk1,3, Joseph Longworth1,4

  • 1Department of Infection and Immunity, Luxembourg Institute of Health, L-4354 Esch-sur-Alzette, Luxembourg.

Bioinformatics (Oxford, England)
|October 7, 2024
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Summary
This summary is machine-generated.

We developed CyCadas, a user-friendly tool for semi-automated annotation of cytometry data clusters. This software simplifies cell population identification and differential abundance analysis, improving biological data interpretation.

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Area of Science:

  • Biotechnology
  • Immunology
  • Bioinformatics

Background:

  • High-dimensional cytometry is crucial for biological and clinical research.
  • Accurate annotation of cell populations in cytometry data is essential for reliable interpretation.
  • Manual annotation of cytometry clusters is time-consuming and prone to errors.

Purpose of the Study:

  • To develop a user-friendly, semi-automated tool for efficient and accurate annotation of cytometry data clusters.
  • To streamline the analysis of high-resolution clustered cytometry data.
  • To facilitate differential abundance detection across experimental conditions.

Main Methods:

  • Introduction of Cytometry Cluster Annotation and Differential Abundance Suite (CyCadas).
  • CyCadas offers visual and computational guidance for cluster annotation.
  • The tool supports data generated with Self-Organizing Map (SOM) clustering algorithms.

Main Results:

  • CyCadas significantly reduces analysis time compared to manual methods.
  • Features include a user-friendly interface, visual data exploration, and automated threshold estimation.
  • Enables definition and annotation of cell phenotypes in a tree-based structure and calculates statistically interpreted cell population abundance.

Conclusions:

  • CyCadas provides an efficient solution for annotating cytometry clusters and detecting differential abundance.
  • The software is an ideal resource for researchers seeking to optimize cytometry workflows.
  • CyCadas is available as open-source software.