Welcome to NicheSphere’s documentation!
NicheSphere is an sc-verse compatible Python library which allows the user to find differential co-localization domains / niches and associated biological processes based on cell type pair co-localization probabilities in different conditions.
About NicheSphere
Docker image and summarized analysis tutorial
We provide access to a Docker image, available at: https://gitlab.com/sysbiobig/ismb-eccb-2025-tutorial-vt3/container_registry. The Docker image comes preconfigured with all necessary libraries, tools, and software required to follow the hands-on exercises. Additionally, the repository at https://gitlab.com/sysbiobig/ismb-eccb-2025-tutorial-vt3 contains a summarized Nichesphere co-localization + communication analysis tutorial.