Software to track nematodes (H. Glycines) and analyze behavior at different drug concentrations

This software is written for our paper in Phytopathology: "Movement and Motion of Soybean Cyst Nematode, Heterodera glycines, Populations and Individuals in Response to Abamectin"

Requirments

Environment Setup

• Download & Install [Matlab R2016a]
• Install Image Processing Toolbox
• Install supported video adaptors for imaging cameras (in our case Q-Imaging)

It was tested on Windows 10 and Mac OS X.

Usage

• Clone this repo

  git clone https://github.com/ukalwa/track-worms.git
  cd track-worms

• Open Matlab and navigate to this cloned repo

• To use our video recording software, please run Matlab/Video/Live_Segmentation.m

• To segment and generate data of the worm from the video, please run Matlab/Video/Segmentation/Live_Segmentation.m

• To analyze the data, please run Matlab/Analysis/calculate_parameters.m

License

This code is GNU GENERAL PUBLIC LICENSED.

Contributing

If you have any suggestions or identified bugs please feel free to post them!