TABLE 1:
Segmentation methods evaluated.
| Method | Inputs | Output | |||
|---|---|---|---|---|---|
| Cytoplasm | Cell membrane | Nucleus | Requires parametersa | Nuclear mask | |
| DeepCell 0.12.3 | X | X | Yes | Yes | |
| DeepCell 0.12.3 | X | X | Yes | Yes | |
| DeepCell 0.9.0 | X | X | No | Yes | |
| DeepCell 0.9.0 | X | X | No | Yes | |
| DeepCell 0.6.0 | X | X | No | Yes | |
| DeepCell 0.6.0 | X | X | No | Yes | |
| Cellpose 2.1.0 | X | X | No | Yes | |
| Cellpose 0.6.1 | X | X | No | Yes | |
| Cellpose 0.0.3.1 | X | X | No | Yes | |
| CellSegm | X | X | Yes | No | |
| CellX | X | Yes | No | ||
| CellProfiler | X | X | Yes | Yes | |
| AICS (classic) | X | X | Yes | No | |
| Voronoi | X | No | Yes | ||
aThe required parameters define the range of acceptable cell sizes.