Clone the repository
git clone https://github.com/shankarchawla1776/multi-ROI-attention-tracking.gitTo set up a virtual enviornment, run:
python3 -m venv venv
source venv/bin/activate
pip install -r requirements.txtConfigure the toml file:
[video]
filepath = # str: path to your video
frames = # str: number of frames in your video
[h5]
filepath = # str: path to your sleap h5 file
[rois]
count = # int: number of rois you want to define
[rois.names]
# for each roi:
roi_numbers = roi_name # int = str
[markers]
bout_marker = # marker to find bouts for
[parmas]
bout_threshold = # theshold for a bout to be valid (s)
To run analysis, first run the ROI labeling GUI:
python3 src/main.pyThis will output basic ROI analysis consisting of marker-ROI overlap in the project's main directory as a .csv file.