index.md

Tutorials

:::{seealso} For more tutorials featuring scanpy and other scverse ecosystem tools, check out the curated set of tutorials at scverse.org/learn :::

Basic workflows

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basics/index

Visualization

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plotting/index

Trajectory inference

For more powerful tools for analysing single cell dynamics, check out the scverse ecosystem packages:

* [CellRank](https://cellrank.readthedocs.io)
* [Dynamo](https://dynamo-release.readthedocs.io/en/latest/)

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trajectories/index

Experimental

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experimental/index

Older tutorials

A number of older tutorials can be found at:

• The scanpy_usage repository

Scanpy used to have tutorials for its (now deprecated) spatial data functionality.
For up-to-date tutorials on working with spatial data, see:

* SquidPy {doc}`squidpy:notebooks/tutorials/index`
* [SpatialData tutorials](https://spatialdata.scverse.org/en/latest/tutorials/notebooks/notebooks.html)
* [Scverse ecosystem spatial tutorials](https://scverse.org/learn/)