Table 1 Comparison of TYPEx with cell phenotyping approaches
From: Deep cell phenotyping and spatial analysis of multiplexed imaging with TRACERx-PHLEX
Approach | Automated cell subtype assignment | Prior inputs | Automated detection of positivity/states | Tissue segmentation | Low-confidence calls | Visualisation and QCa | Summary outputsb | Dockerised |
|---|---|---|---|---|---|---|---|---|
TYPEx | ✓ | cell type definitions | ✓ (cohort level) | ✓ | ✓ (automated) | ✓ | ✓ | ✓ |
STELLAR7 | ✓ | training data for the panel | ✓ (image and cohort level) | ⤫ | ⤫ | ⤫ | ⤫ | ⤫ |
Astir6 | ✓ | cell type definitions | ⤫, under development | ⤫ | ✓ (requires user-defined threshold) | heatmap | ⤫ | ⤫ |
CELESTA5 | ✓ | cell type definitions | ✓ (optimisation, image and cohort level) | ⤫ | ✓ (requires user-defined threshold) | scatter plot | ⤫ | ⤫ |
FastPG19 | ⤫ | unsupervised | ⤫ | ⤫ | ⤫ | ⤫ | ⤫ | ✓ |
