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        • NAVis - Neuron Analysis and Visualization

    NAVis - Neuron Analysis and Visualization¶

    NAVis is a Python library for analysis and visualization of neuron morphology. It stands on the shoulders of the excellent natverse for R.

    For a brief introduction to the library, please see Quickstart. Visit the installation page to learn how to install the package. You can browse the example gallery and API reference to see what you can do with navis.

    NAVis is designed to be highly extensible. Make sure to check out the other libraries in the navis ecosystem.

    NAVis is licensed under the GNU GPL v3+ license. The source code is hosted at Github. Feedback, feature requests, bug reports and general questions are very welcome and best placed in a Github issue.

    Polyglot

    Work with all kinds of data: skeletons, meshes, dotprops, images.

    Morphometrics

    Run Strahler analysis, cable length, volume, tortuosity and more.

    Plotting

    Generate beautiful scientific 2D (matplotlib) and 3D (vispy or plotly) figures.

    Processing

    Smoothing, resampling, skeletonization, meshing and more!

    Fast

    Scalable thanks to out-of-the-box support for multiprocessing.

    NBLAST

    Cluster your neurons by morphology.

    Transform

    Fully featured transform system to move neurons between brain spaces.

    Import/Export

    Read and write from/to SWC, NRRD, Neuroglancer’s precomputed format, OBJ, STL and more!

    Online

    Download neurons straight from Allen’s MICrONS datasets, neuromorpho or neuPrint.

    Interfaces

    Load neurons into Blender 3D, simulate neurons and networks using NEURON, or use the R natverse library.

    Have it your way

    Designed to work in Jupyter notebooks, from terminal or as a script.

    Extensible

    Write your own library building on or extending navis functions.

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    Source

    © Copyright 2018, Philipp Schlegel.
    Created using Sphinx 5.3.0.