gks2p

This code uses modified suite2p that can be used in modules

Setting up

Installation

create conda environment

conda create --name gks2p python=3.9 pandas scipy spyder
activate conda environment

conda activate gks2p
install GAK:suite2p package directly from github

python -m pip install "suite2p[gui] @ git+https://github.com/gkeliris/suite2p.git@gks2p"
install CELLPOSE

pip install 'cellpose[gui]'
install scanreader

pip3 install git+https://github.com/atlab/scanreader.git
clone the gks2p repository from github

git clone [email protected]:gkeliris/gks2p.git

In case of problems / optional

optional in case not working

sudo apt-get install libegl1

conda install pyqt

pip uninstall PyQt6

pip install PyQt5
install scipy / pandas / spyder in case not installed with environment

conda install pandas

conda install scipy

conda install spyder
install VSCODE in case not already installed

sudo snap install code --classic