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    57 repositories

    • movement

      Public
      Python tools for analysing body movements across space and time
      behaviorkinematicsneurosciencebehaviouranimalmotion-trackingethology
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •11•115•100•13•Updated Jan 24, 2025Jan 24, 2025

    • spikewrap

      Public
      A tool to streamline extracellular electrophysiology analysis using SpikeInterface
      electrophysiologyneuropixelsextracellular-electrophysiology
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•13•25•3•Updated Jan 24, 2025Jan 24, 2025

    • derotation

      Public
      Derotate images acquired via 2-photon or 3-photon calcium imaging
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•7•13•1•Updated Jan 24, 2025Jan 24, 2025

    • photon-mosaic

      Public
      Automate analysis and tracking of multiple calcium imaging datasets to compare parameters choices
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•1•1•Updated Jan 24, 2025Jan 24, 2025

    • ethology

      Public
      Data processing tools for animal behavioural analysis
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•8•18•3•Updated Jan 23, 2025Jan 23, 2025

    • actions

      Public
      Re-usable GitHub Action scripts
      MIT License
      •3•10•6•0•Updated Jan 21, 2025Jan 21, 2025

    • poisson-numcodecs

      Public
      Numcodecs implementation of photon conversion using poisson statistics
      Python
      •
      MIT License
      •7•0•0•0•Updated Jan 13, 2025Jan 13, 2025

    • slides-qbatch-template-building

      Public
      Slides for NIU meeting about parallelising template building (and possibly other things)
      SCSS
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jan 7, 2025Jan 7, 2025

    • fancylog

      Public
      Fancier logging with python.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •4•12•5•0•Updated Jan 7, 2025Jan 7, 2025

    • slurmio

      Public
      Python tools to read SLURM job parameters.
      Python
      •
      MIT License
      •1•7•0•0•Updated Jan 7, 2025Jan 7, 2025

    • python-cookiecutter

      Public
      Utility to create a basic Python project structure with tests, CI etc.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•24•14•0•Updated Jan 6, 2025Jan 6, 2025

    • swc-slack

      Public
      Tools to interface with slack
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•7•0•0•Updated Jan 6, 2025Jan 6, 2025

    • datashuttle

      Public
      Tool for the creation, validation and transfer of neuroscience project folders.
      neurosciencedata-managementneuroblueprint
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•15•50•3•Updated Jan 6, 2025Jan 6, 2025

    • dashboard

      Public
      Overview of all Neuroinformatics Unit repos
      TypeScript
      •
      MIT License
      •24•1•1•0•Updated Jan 3, 2025Jan 3, 2025

    • suite2p

      Public
      cell detection in calcium imaging recordings
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •244•0•0•0•Updated Dec 19, 2024Dec 19, 2024

    • translocator-models

      Public
      Evaluate the model for the translocator project
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•2•0•0•Updated Dec 16, 2024Dec 16, 2024

    • NeuroBlueprint

      Public
      Lightweight data specification for systems neuroscience, inspired by BIDS.
      Creative Commons Attribution 4.0 International
      •1•17•9•0•Updated Dec 10, 2024Dec 10, 2024

    • neuroinformatics-unit.github.io

      Public
      Home website of the Neuroinformatics Unit
      BSD 3-Clause "New" or "Revised" License
      •0•7•10•1•Updated Dec 9, 2024Dec 9, 2024

    • HowTo

      Public
      NIU website on common software problems and their troubleshooting
      Creative Commons Attribution 4.0 International
      •1•9•12•1•Updated Nov 21, 2024Nov 21, 2024

    • course-extracellular-ephys-analysis

      Public
      Covering how to build electrophysiology pipelines with SpikeInterface
      Python
      •
      MIT License
      •0•5•0•0•Updated Nov 5, 2024Nov 5, 2024

    • software-skills

      Public
      Software skills training at the Sainsbury Wellcome Centre & Gatsby Computational Neuroscience Unit
      Creative Commons Attribution 4.0 International
      •0•7•0•0•Updated Nov 5, 2024Nov 5, 2024

    • rsp-vision

      Public archive
      Analysis and visualization of calcium imaging data from retrosplenial cortex
      neuroscience-methods
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•8•23•0•Updated Oct 28, 2024Oct 28, 2024

    • .github

      Public
      MIT License
      •0•6•0•0•Updated Oct 8, 2024Oct 8, 2024

    • course-behavioural-analysis

      Public
      Materials and slides for the video-based analysis of animal behaviour course.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •1•4•3•0•Updated Oct 3, 2024Oct 3, 2024

    • course-behaviour-hpc

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•5•2•0•Updated Oct 2, 2024Oct 2, 2024

    • course-software-good-practice

      Public
      Slides for NIU collaborative coding and software development good practices
      SCSS
      •
      BSD 3-Clause "New" or "Revised" License
      •0•7•0•0•Updated Oct 2, 2024Oct 2, 2024

    • slides-SWC-PhD-intro

      Public
      Slides introducing the software skills courses on the SWC/GCNU PhD course
      SCSS
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•2•0•Updated Sep 30, 2024Sep 30, 2024

    • course-data-management-neuroblueprint

      Public
      Toy examples highlighting good data management practices
      Python
      •
      MIT License
      •0•6•0•0•Updated Sep 26, 2024Sep 26, 2024

    • org-metrics-dashboard

      Public archive
      Overview of all NIU repos
      TypeScript
      •
      MIT License
      •24•1•0•0•Updated Sep 5, 2024Sep 5, 2024

    • slides-demo-cellfinder-multiprocessing

      Public
      SCSS
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Sep 4, 2024Sep 4, 2024