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    75 repositories

    • datashuttle

      Public
      Tool for the creation, validation and transfer of neuroscience project folders.
      neurosciencedata-managementneuroblueprint
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •27•29•57•7•Updated Nov 28, 2025Nov 28, 2025

    • movement

      Public
      A Python toolbox for analysing animal body movements across space and time
      behaviorkinematicsneurosciencebehaviouranimalmotion-trackingethology
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •75•212•111•29•Updated Nov 28, 2025Nov 28, 2025

    • neuroinformatics-unit.github.io

      Public
      Home website of the Neuroinformatics Unit
      BSD 3-Clause "New" or "Revised" License
      •4•12•7•2•Updated Nov 28, 2025Nov 28, 2025

    • ethology

      Public
      Mix-and-match computer vision tools for your animal behaviour analysis
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •19•20•27•16•Updated Nov 27, 2025Nov 27, 2025

    • fancylog

      Public
      Fancier logging with python.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •9•14•11•1•Updated Nov 27, 2025Nov 27, 2025

    • HowTo

      Public
      NIU website on common software problems and their troubleshooting
      Creative Commons Attribution 4.0 International
      •1•10•13•1•Updated Nov 25, 2025Nov 25, 2025

    • photon-mosaic

      Public
      Automated and reproducible analysis of multiphoton imaging datasets
      neurosciencecalcium-imagingneuroscience-methodscalcium-imaging-analysis
      Python
      •
      GNU General Public License v3.0
      •2•11•22•6•Updated Nov 25, 2025Nov 25, 2025

    • dashboard

      Public
      Overview of all Neuroinformatics Unit repos
      TypeScript
      •
      MIT License
      •36•2•1•8•Updated Nov 24, 2025Nov 24, 2025

    • spikewrap

      Public
      A package to manage electrophysiology analysis.
      electrophysiologyneuropixelsextracellular-electrophysiology
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •15•23•21•5•Updated Nov 24, 2025Nov 24, 2025

    • slides-movement-cbias2025

      Public
      Slides about `movement`, presented at CBIAS 2025
      TeX
      •
      Creative Commons Attribution 4.0 International
      •0•0•0•0•Updated Nov 23, 2025Nov 23, 2025

    • actions

      Public
      Re-usable GitHub Action scripts
      MIT License
      •4•13•8•1•Updated Nov 21, 2025Nov 21, 2025

    • poseinterface

      Public
      Run pose estimation across frameworks
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•4•0•0•Updated Nov 19, 2025Nov 19, 2025

    • beekeeping

      Public
      Managing video metadata for animal behaviour experiments
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•3•0•0•Updated Nov 18, 2025Nov 18, 2025

    • scripts

      Public
      Small but useful scripts to share
      Python
      •0•7•0•1•Updated Nov 17, 2025Nov 17, 2025

    • course-animals-in-motion

      Public
      A handbook about open-source tools for tracking animals in videos and quantifying behaviour.
      pythonbehaviortrackingmotionhandbookanimalsmovementquarto
      TeX
      •
      Creative Commons Attribution 4.0 International
      •0•5•6•0•Updated Nov 13, 2025Nov 13, 2025

    • course-extracellular-ephys-analysis

      Public
      Covering how to build electrophysiology pipelines with SpikeInterface
      Python
      •
      MIT License
      •0•5•1•0•Updated Nov 4, 2025Nov 4, 2025

    • python-cookiecutter

      Public
      Utility to create a basic Python project structure with tests, CI etc.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •5•34•12•0•Updated Nov 3, 2025Nov 3, 2025

    • slurmio

      Public
      Python tools to read SLURM job parameters.
      Python
      •
      MIT License
      •1•8•0•0•Updated Nov 3, 2025Nov 3, 2025

    • swc-slack

      Public
      Tools to interface with slack
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•8•0•0•Updated Nov 3, 2025Nov 3, 2025

    • qt-niu

      Public
      Reusable Qt elements
      Python
      •
      MIT License
      •0•4•0•0•Updated Nov 3, 2025Nov 3, 2025

    • derotation

      Public
      Derotate images acquired via multiphoton calcium imaging
      neurosciencecalcium-imagingneuroscience-methods
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•8•5•1•Updated Nov 1, 2025Nov 1, 2025

    • software-skills

      Public
      Software skills training at the Sainsbury Wellcome Centre & Gatsby Computational Neuroscience Unit
      Creative Commons Attribution 4.0 International
      •0•8•0•0•Updated Oct 30, 2025Oct 30, 2025

    • smart-kages-movement

      Public
      Using the movement package to analysing mouse home cage monitoring data acquired in Smart-Kages and tracked with DeepLabCut.
      trackingmousebehaviourmovement
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •1•4•1•0•Updated Oct 30, 2025Oct 30, 2025

    • slides-movement-governance

      Public
      The emerging governance structure of the movement project.
      TeX
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•0•0•Updated Oct 24, 2025Oct 24, 2025

    • quarto-presentation-template

      Public template
      TeX
      •
      BSD 3-Clause "New" or "Revised" License
      •1•11•2•0•Updated Oct 21, 2025Oct 21, 2025

    • slides-histology-project-overview

      Public
      BSD 3-Clause "New" or "Revised" License
      •0•2•0•0•Updated Oct 15, 2025Oct 15, 2025

    • slides-behavioural-projects-overview

      Public
      Slides giving an overview of NIU's behavioural analysis projects.
      TeX
      •
      BSD 3-Clause "New" or "Revised" License
      •0•7•0•0•Updated Oct 14, 2025Oct 14, 2025

    • .github

      Public
      MIT License
      •1•6•0•0•Updated Oct 10, 2025Oct 10, 2025

    • course-behavioural-analysis

      Public archive
      Materials and slides for the video-based analysis of animal behaviour course.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •1•5•0•0•Updated Oct 9, 2025Oct 9, 2025

    • course-behaviour-hpc

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•6•3•0•Updated Oct 8, 2025Oct 8, 2025