A sample workflow which can be applied to both standard flow cytomertic and CyTOF data. The analysis includes the following steps:
- Data import and preprocessing
- Transformation
- Producing diagnostic plots
- MDS
- NRS
- Cell population identification with FlowSOM and ConsensusClusterPlus
- Visual representation with tSNE/UMAP
- Cluster merging and annotation
- Differential analysis
- Differential cell population abundance
- Differential analysis of overall marker expression