Table 1 Program comparison of Andy’s image analysis algorithms with CellProfiler, ilastik and Imaris.
From: Andy’s Algorithms: new automated digital image analysis pipelines for FIJI
Andy’s Algorithms | CellProfiler | ilastik | Imaris | |
|---|---|---|---|---|
Tutorial | Interactive tutorial for each algorithm and analysis all-in-one | General program video and text tutorial | General program text tutorial | General program text tutorial |
Application | Designed for specific assays for use in FIJI9 | General image analysis program | General image analysis program | General image analysis program |
Batch Analysis | ✓ | ✓ | ✓ | ✓ (requires additional input + package upgrade) |
Result output | Single summary spreadsheet output | Single summary spreadsheet output | Spreadsheet per image output - requires compilation | Spreadsheet per rendered layer/per image - requires compilation |
Simplicity | Simple step-by-step method | Powerful but complex. Must design and create pipeline | Simple step-by-step method | Complex step-by-step method |
Image Optimization | ✓ | ✓ | ✗ | ✓ |
Overlay | ✓ | ✓ | ✗ | ✓ |
Free Open Access | ✓ | ✓ | ✓ | ✗ |
Signal:Background sensitivity | High | Unknown | Low | High |
