Table 1.

Program comparison of Andy’s image analysis algorithms with CellProfiler, ilastik and Imaris.

	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