A framework for analyzing the calcium imaging of zebrafish
git clone https://github.com/Knerlab/neural-activity-analysis.git
cd neural-activity-analysis
conda create --name zebrafish --file requirements.txt
conda activate zebrafish
Dataset: we release some of the datasets used in paper here.
Zebrafish Brain Atlas: can be download here
python demo.py
python preprocess.py
Including the correction of motion artifacts, environmental lights artifacts, and signal normalizing
python ROIExtraction.py
need to set the path of the atlas
python meta_analysis_FC.py
python meta_analysis_fre_ROI.py