Repositories list

• nexus

  Public
  Blue Brain Nexus - A knowledge graph for data-driven science

  scalanexusprovenance+ 2knowledge-graphshacl

  Scala

  •

  Apache License 2.0

  •74•280•264•0•Updated Jan 17, 2025Jan 17, 2025

• open-data-registry

  Public
  A registry of publicly available datasets on AWS

  Python

  •

  Apache License 2.0

  •940•1•0•0•Updated Jan 17, 2025Jan 17, 2025

• neuroagent

  Public
  LLM agent made to communicate with different neuroscience related tools

  Python

  •

  Apache License 2.0

  •2•9•0•1•Updated Jan 13, 2025Jan 13, 2025

• sbo-qa-automation

  Public
  Python

  •

  Apache License 2.0

  •1•0•0•0•Updated Jan 13, 2025Jan 13, 2025

• connectome-manipulator

  Public
  A connectome manipulation framework for SONATA circuits

  experimentbuildcircuit+ 1visualize

  Python

  •

  Apache License 2.0

  •3•3•1•0•Updated Jan 13, 2025Jan 13, 2025

• BluePyEModel

  Public
  Blue Brain Python Electrical Modeling Pipeline

  pythonworkflowbuild+ 10simulationneurosciencemodellingparameteranalyseneuronoptimisation+ 3

  Python

  •

  Other

  •8•6•0•0•Updated Jan 13, 2025Jan 13, 2025

• neurodamus

  Public
  A BBP Simulation Control application for NEURON

  simulationcellularneuron-simulations+ 1brain

  Python

  •

  Apache License 2.0

  •8•10•8•0•Updated Jan 10, 2025Jan 10, 2025

• HighFive

  Public
  HighFive - Header-only C++ HDF5 interface

  C++

  •

  Boost Software License 1.0

  •163•701•47•0•Updated Jan 9, 2025Jan 9, 2025

• Currentscape

  Public
  Currentscape is a Python tool enabling scientists to easily plot the currents in electrical neuron models. The code is based on the paper Alonso and Marder, 2019.

  analyzeemodel

  Python

  •

  Other

  •6•8•0•1•Updated Jan 8, 2025Jan 8, 2025

• luigi-tools

  Public
  Extra tools to work with the Luigi library

  luigipython

  Python

  •

  Apache License 2.0

  •2•9•0•1•Updated Jan 6, 2025Jan 6, 2025

• Ultraliser

  Public
  Reconstruction of watertight meshes, annotated volumes and center line skeletons of neuroscience spatial structures from non-watertight inputs, segmented masks, skeletons of NGV morphologies and volumes.

  morphologymeshneurons+ 6volumeneuronskeletonsskeletonizationastrocytevasculature

  C++

  •

  GNU General Public License v3.0

  •5•26•28•0•Updated Jan 3, 2025Jan 3, 2025

• spack

  Public
  A flexible package manager that supports multiple versions, configurations, platforms, and compilers.

  Python

  •

  Other

  •2.3k•9•2•41•Updated Dec 27, 2024Dec 27, 2024

• platform-docs

  Public
  Apache License 2.0

  •1•2•0•0•Updated Dec 19, 2024Dec 19, 2024

• Molsys-transcriptomic-atlas

  Public
  This repository provides code to generate a transcriptomic atlas and its mapping to TME types.

  Jupyter Notebook

  •

  Apache License 2.0

  •1•0•0•0•Updated Dec 19, 2024Dec 19, 2024

• synthesis-workflow

  Public
  Luigi workflow for neuronal synthesis

  Python

  •

  Apache License 2.0

  •1•0•0•1•Updated Dec 18, 2024Dec 18, 2024

• nexus-forge

  Public
  Building and Using Knowledge Graphs made easy

  data-sciencerdfknowledge-graph+ 5json-lddata-managementshaclknowledge-engineeringknowledgegraph

  Python

  •

  GNU Lesser General Public License v3.0

  •19•41•49•7•Updated Dec 18, 2024Dec 18, 2024

• region-grower

  Public
  Neuronal synthesis in atlas-based regions

  Python

  •

  Apache License 2.0

  •1•0•0•0•Updated Dec 18, 2024Dec 18, 2024

• nexus-web

  Public
  Nexus Web is the interface of Blue Brain Nexus

  reactreduxnodejs+ 5javascripttypescriptstorybookserver-side-renderingnexus

  TypeScript

  •

  Apache License 2.0

  •9•18•0•1•Updated Dec 17, 2024Dec 17, 2024

• spacktainers

  Public
  Automated container building via AWS Codebuild, based on Spack

  dockerspackcontainerization

  Dockerfile

  •

  Apache License 2.0

  •1•2•1•3•Updated Dec 17, 2024Dec 17, 2024

• nmodl-references

  Public
  nmodl references

  C++

  •

  Apache License 2.0

  •1•1•0•0•Updated Dec 17, 2024Dec 17, 2024

• nmodl

  Public
  Code Generation Framework For NEURON MODeling Language

  hpcdslneuroscience+ 4compilerscode-generationneuron-simulatornmodl

  C++

  •

  Apache License 2.0

  •16•57•167•21•Updated Dec 17, 2024Dec 17, 2024

• cortexetl

  Public
  Jupyter Notebook

  •

  Apache License 2.0

  •1•2•0•0•Updated Dec 16, 2024Dec 16, 2024

• core-web-app

  Public
  Open Brain Platform

  neurosciencesimulation-neuroscience

  TypeScript

  •

  Apache License 2.0

  •1•4•0•0•Updated Dec 16, 2024Dec 16, 2024

• functionalizer

  Public
  Create a functional connectome from physical connections between cells

  neurosciencein-silicoconnectome-generation

  Python

  •

  Apache License 2.0

  •1•1•6•1•Updated Dec 16, 2024Dec 16, 2024

• BlueRecording

  Public
  Creates weights files for extracellular recording in neurodamus

  experimentcircuit

  Python

  •

  GNU General Public License v3.0

  •1•4•0•0•Updated Dec 13, 2024Dec 13, 2024

• axon-synthesis

  Public
  A package to synthesize artificial axons

  morphologyneuroscienceaxon+ 1neuroscience-methods

  Python

  •

  Apache License 2.0

  •1•1•0•0•Updated Dec 13, 2024Dec 13, 2024

• ccfv3a-extended-atlas

  Public
  Python

  •

  Apache License 2.0

  •1•0•0•0•Updated Dec 13, 2024Dec 13, 2024

• morphology-suite

  Public
  3•4•0•0•Updated Dec 13, 2024Dec 13, 2024

• appositionizer

  Public
  Detect physical locations for synapses

  neuroscienceconnectomeconnectome-generation

  C++

  •

  Apache License 2.0

  •2•1•1•0•Updated Dec 13, 2024Dec 13, 2024

• Molsys-MetabolicModel

  Public
  Jupyter Notebook

  •

  Apache License 2.0

  •1•0•0•0•Updated Dec 12, 2024Dec 12, 2024