To install Scaden via pip, simply run the following command:
pip install scaden
Bioconda installation is currently not supported for the newest Scaden versions, but this will hopefully change soon. It is therefore highly recommended to install via pip.
conda install -c bioconda scaden
If you don't want to install Scaden at all, but rather use a Docker container, we provide that as well. For every release, we provide two version - one for CPU and one for GPU usage. To pull the CPU container, use this command:
docker pull ghcr.io/kevinmenden/scaden/scaden
For the GPU container:
docker pull ghcr.io/kevinmenden/scaden/scaden-gpu
We now also provide a webtool for you:
It comes with pre-generated training datasets for several tissues. You only need to upload the epxression data for prediction. Please not that this is still in beta.