risserlin/scte repository overview

Docker built with https://github.com/JiekaiLab/scTE⁠ installed.

Uses python 3.11 and installation of scTE required the following versions -

• numpy<2.0
• pandas>=2.1,<3
• anndata>=0.10,<0.13
• scanpy>=1.10,<1.11

Installed both mouse and human genome indices on docker image for easier use.

To run docker:

docker run -v "$(pwd)":/scTE/my_data -it risserlin/scte bash  

This will bring you into a shell where your current directory is mapped the /scTE/my_data in the docker.