connectometools

Open source · R · Python · Web

Tools for neuroanatomy & connectomics

Libraries, apps and dataset packages to fetch, analyze, compare and visualize neurons and connectomes. Developed by the Drosophila Connectomics Group (University of Cambridge) and the Jefferis lab (MRC LMB), together with contributors from many other labs.

Start without code: Coda Browse the tools

    The APL neuron and seven olfactory projection neurons from the FlyWire connectome - drag to rotate.

      Tools

      Everything from general-purpose neuron libraries to dataset-specific packages. Many tools exist in both R (the natverse) and Python (the navis ecosystem).

      Datasets

      Which tool works with which connectome? dedicated support (dataset-specific functions, meta data) · generic access (e.g. any CAVE, neuPrint or CATMAID server). Click a dataset to filter the tools.

      I want to…

      Short recipes for common tasks, side by side in R and Python. See each package's docs for the full story.

        Ecosystem

        How the packages build on each other. Node size reflects GitHub stars; dashed lines connect R and Python equivalents. Hover to highlight a package's neighborhood, click to open it.

        RPythonWeb depends onequivalentnot ours

        Get in touch

        Questions, bug reports, ideas or want to contribute? We'd love to hear from you.

        Questions & bugs

        Open an issue on the tool's GitHub repository - every tool card above links to it. For open-ended questions, navis and Coda also have discussion boards.

        Tip: include a short code example, your package versions and the dataset you are using.

        Something missing here?

        Tool not listed or information out of date? Open an issue on flyconnectome/tools or edit tools.yaml directly.

        Everything else

        For collaborations and general enquiries, email us at flyconnectome@gmail.com.