behaviour-analysis

Analyze data taken from TrackStim (and potentially other worm recordings)

Installation

1. Install anaconda
2. Create the conda environment from for windows/mac

conda create --name behaviour-analysis --file conda_req_windows.txt

conda create --name behaviour-analysis --file conda_req_mac.txt

3. Fix tierpsy issues

• Find all instances of cv2.findContours()
• Delete the first return value in the multi-return assignment so that cv2.findContours() only returns 2 values

Other dependencies

This requires everything that tierpsy has, with some additions:

• pandas needs to be 0.25.1
• seaborn
• scikit-image
• networkx
• tifffile

Usage

TODO