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flow-cytometry

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Flow cytometry experimental design and analysis — panel design, compensation, gating, and QC.

skills/flow-cytometry/SKILL.md

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Repository stars (not skill ratings): 54
Repository last updated: Oct 10, 2026
License: MIT

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## Overview

flow-cytometry covers multicolor flow cytometry from panel design to analyzed data: fluorochrome
selection, compensation and controls, gating strategies, and the QC that keeps cytometry honest.
Flow generates single-cell data on millions of cells in minutes — but panel-design errors and
bad gating produce confident-looking wrong answers at the same speed.

## When to use

- Designing antibody panels: fluorochrome assignment, spillover minimization.
- Controls: unstained, FMO, isotype, biological controls, viability dyes.
- Compensation: setup, validation, when to use beads vs cells.
- Gating: hierarchical strategies, doublet exclusion, dump channels.
- Analysis: manual gating vs automated clustering (FlowSOM, UMAP).