Evaluate bacterial infection

Brief introduction

This Fiji macro is designed to automatically sum up the fluorescence signal from the green channel and count the nucleus number from a RGB tif file stitched by high content screen imaging system.

#Example

Fluorescence images from the high content screen imaging system EVOS.

#Description

Users are directed to define an assay region according to the sample distribution within a well. Then the cropped tif file with RGB layers are decomposed to green and blue layers. The regions with green positive signal are defined by the background subtracted green layer. The region-of-interest (ROI) list is then used to measure the green intensity from the raw image. Another decomposed blue layer is used to count for nucleus.

Instruction

1. Clone this repository to your own account.
2. Install “Fiji is just Image J“ in your PC.
3. Launch Fiji.
4. Drag and drop the image to be analyzed.
5. Execute the script under Plugins\Macros\Run
6. Inspect the result with generated ROI list. (If the result is over/ under estimation, please modify the threshold value for the green channel in the script.)
7. Save the measurement in your harddisc.

How to cite

If this helps your assay in your research, please cite the doi of this tool.