Notebooks / Tutorials (Very Detailed, Step-by-Step)#
These are long-form, notebook-style tutorials for the Cellucid Python package. They are intentionally verbose:
every step is explained,
edge cases and “gotchas” are called out,
and each tutorial ends with a large troubleshooting section.
Note
These pages are written in MyST and live in docs/user_guide/python_package/f_notebooks_tutorials/.
Some entries link to real .ipynb notebooks in the same folder. The docs site does not execute notebooks during the build (nb_execution_mode = "off"), so you should run notebooks locally to reproduce results.
How to use this section, expected prerequisites, and how to run the notebooks reliably.
“I have an AnnData and I just want to see my cells.” Minimal choices, maximum clarity.
Reproducible exports, scaling workflows, and practical “do this when…” guidance.
Hooks, session mechanics, vector fields, and format-level debugging.
Dataset-specific preparation notebooks (end-to-end) you can adapt to your data.
Notebooks focused on embedding, Python↔frontend events, and session bridging.