WormPsyQi is a semi-automated pipeline for high-throughput analysis of synapses in the nematode C. elegans. Using fluorescent protein-based techniques, WormPsyQi can quantitate multiple features of synapses, including number, size, intensity, and spatial distribution. We provide a pure python-based GUI.
Clone this repository and use the provided yml file to setup an Anaconda environment. If you're on a Windows machine, make sure that you run your Anaconda Prompt as administrator.
$ conda env create -f ./conda-environments/WORMPSYQI.yml
To check if the environment is installed successfully:
$ conda activate wormpsyqi
You will see your shell has (wormpsyqi) at the start as below.
(wormpsyqi) $
After installing and activating the environment, you can run WormPsyQi as below.
(wormpsyqi) $ python -m gui.main
See the running guide for more information.