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In FlowJo, after importing your cytometry data, click the 'Check sample quality' button in the tools workspace. This will flag samples that should be checked. FlowJo plots the median values for each parameter over time and flags any that are outside of 2 standard deviations. Green is good. Any thing else should be reviewed.
Active sample quality check - FlowAI in FlowJo
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| Method | Useful for... | How to | Example image |
|---|---|---|---|
| tSNE - R | |||
| tSNE - FlowJo | |||
| tSNE - MATLAB | |||
| SPADE - R | |||
| SPADE - FlowJo | |||
| SPADE - MATLAB | |||
| Scaffold | |||
| Vortex | |||
| FlowClust | |||
| FlowSOM | |||
| CITRUS | |||
| SamSPECTRAL | |||
| RchyOptimyx | |||
| immunoClust |
Workflow 1 - Analysing a high parameter single FCS file
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