Explore @BlueBrain Open Source projects

The Blue Brain Project (@BlueBrain)

BlueBrain

Stars
3,130
Global Org. Rank 6,775 (Top 3 %)
Registered almost 13 years ago
Most used languages

Python
47.7 %

C++
20.9 %

Scala
8.5 %

Jupyter Notebook
7.2 %

TypeScript
2.6 %

JavaScript
2.6 %

HTML
2.0 %

C
2.0 %

Others 7.0 %
Location 🇨🇭 Switzerland
Country Total Rank 138
Country Ranking

NMODL 1

AGS Script 7

Scala
9

Nix
20

C++
25

CMake 55

Python
67

Makefile 72

Svelte 73

Jupyter Notebook
90

Vue 109

HTML
246

TypeScript
286

C
319

Dockerfile
324

Java
367

TeX
561

JavaScript
1,156

HighFive

HighFive - Header-only C++ HDF5 interface

Brayns

Visualizer for large-scale and interactive ray-tracing of neurons

nexus

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

BluePyOpt

Blue Brain Python Optimisation Library

CoreNeuron

Simulator optimized for large scale neural network simulations.

NeuroMorphoVis

A lightweight, interactive, extensible and cross-platform framework for building, visualizing and analyzing digital reconstructions of neuronal morphology skeletons extracted from microscopy stacks.

NeuroM

Neuronal Morphology Analysis Tool

eFEL

Electrophys Feature Extraction Library

BioExplorer

The Blue Brain BioExplorer (BBBE) is a tool for data visualization experts and scientists to extract and analyze scientific data from visualization and interactive exploration

nmodl

Code Generation Framework For NEURON MODeling Language

Tide

Tiled Interactive Display Environment

MOOC-neurons-and-synapses-2017

Reference data for the "Simulation Neuroscience:Neurons and Synapses" Massive Online Open Course

Jupyter Notebook

Search

Blue Brain text mining toolbox for semantic search and structured information extraction

Rockets

REST and websockets C++ library

nexus-forge

Building and Using Knowledge Graphs made easy

NeuroTS

Topological Neuron Synthesis

VessMorphoVis

A lightweight, interactive, extensible and cross-platform framework for building, visualizing and analyzing vasculature (or blood vessels) morphologies.

BlueGraph

Python framework for graph analytics and co-occurrence analysis

Livre

Large-scale Interactive Volume Rendering Engine

RTNeuron

Interactive visualization framework for geometrically detailed neuron simulations

TMD

A python package for the topological analysis of neurons.

MorphIO

A python and C++ library for reading and writing neuronal morphologies

SimulationTutorials

Public tutorials around electrophysiological simulations

Jupyter Notebook

Ultraliser

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.

bluima

Natural Language Processing Toolkit for Neuroscience

Brion

Blue Brain C++ File IO Library

Deflect

C++ library for building applications to stream pixels to Tide

bbp-nixpkgs

Blue Brain Project nixpkgs configuration - Build a brain with Nix

snap

The Blue Brain Pythonic Simulation and Network Analysis Productivity layer

Atlas-Download-Tools

Search, download, and prepare brain atlas data.

nexus-web

Nexus Web is the interface of Blue Brain Nexus

nexus-kg

Nexus KnowledgeGraph Service

neurocurator

Desktop application (GUI) to perform systematic and collaborative curation of neuroscientific literature.

osgTransparency

OSG render bins for transparent geometry

BluePyEfe

BluePyEfe: Blue Brain Python E-feature extraction

EModelRunner

Runs cells from stand-alone packages.

BlueCelluLab

Biologically detailed neural network simulations and analysis API

BluePyMM

Blue Brain Python Cell Model Management

cyme

Framework to facilitate SIMD programming, without any tedious SIMD intrinsics.

libsonata

A python and C++ interface to the SONATA format

atlas-alignment

Blue Brain multi-modal registration and alignment toolbox

dash

Data Access and Sharing

Long-range-micro-connectome

BlueBrain's recipe writer to parameterize structure and logic of a mouse whole-neocortex connectome

nexus-js

A set of JavaScript libraries built on top of Nexus

bluebrain.github.com

API documentation for BlueBrain projects:

nexus-bbp-domains

BBP domains specification (schemas, vocabularies)

NeuroR

A collection of tools to repair morphologies

neurodamus

A BBP Simulation Control application for NEURON

singlecell-emodel-suite

luigi-tools

Extra tools to work with the Luigi library

learning_musculoskeletal_arm_control

This repository contains the source code of the paper titled "Optimum trajectory learning in musculoskeletal systems with model predictive control and deep reinforcement learning".

AstroVascPy

Vasculature blood flow computation and impact of astrocytic endfeet on vessels

MOOC-hippocampus-network-simulation-2019

Jupyter Notebook

morphoclass

Neuronal morphology preparation and classification using Machine Learning.

nat

Python module to use the annotations created with NeuroCurator, for example in a Jupyter notebook.

Jupyter Notebook

morph-tool

spack-packages

Repository of spack external packages

hpc-coding-conventions

Pydoxine

Python docstring generation for C++ projects using boost::python

data-validation-framework

Simple framework to create data validation workflows.

SSCxEModelExamples

Jupyter Notebook

nexus-prov

SHACL shapes for W3C PROV-O

Currentscape

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.

nexus-search-webapp

The Searchable Knowledge-Graph Application

nexus-python-sdk

A Python API to interface with Nexus REST API

voxcell

Tools to work with voxel based brain atlases.

bluepyentity

Manage entities within the knowledge graph

Jupyter Notebook

blueetl

Multiple simulations analysis tool

nexus-iam

Nexus IAM Service

Deep-Atlas

dir-content-diff

Simple tool to compare directory contents and get differences using smart comparators.

ConnectomeUtilities

Connectome Utilities

me-features-to-mo-ID-mapping

Monsteer

Interactive Supercomputing Tools and Library

BluePyEModel

Blue Brain Python Electrical Modeling Pipeline

hippocampus-workshop

Jupyter Notebook

morphology-suite

BlueNaaS-Subcellular

A web environment for the simulation of brain molecular networks.

atlas-annotation

Align and improve brain annotation atlases

morphology-workflows

Workflows used for morphology processing.

basalt

C++11 Graph Storage library

sphinx-bluebrain-theme

The Blue Brain Project's documentation theme.

codash

Collage-based distribution of DASH entities

neuromapp

The neuromapp library reproduces the algorithms of the main software of the BBP as a collection of mini-apps

EMSim

EMSim is a library that compute different electro-magnetic effects like LPF and VSD.

atlas-direction-vectors

Tools to compute direction vectors in the context of brain atlases.

nexus-service

Building blocks commonly used in Nexus services

emodel-generalisation

Generalisation of electrical models of neurons with MCMC

morphology-documentation

Morphology Specifications used at BBP

RenderingResourceManager

A Python based service managing rendering resources for visualization web services

nexus-cli

A Command Line Interface (CLI) for Nexus

sbt-nexus

An SBT Plugin for building Nexus Scala based projects

DMT

atlas-densities

Tools to compute densities in the context of brain atlases.

git-cmake-format

diameter-synthesis

Synthesize diameters of neuronal morphologies

mod2c

Converter for mod files to C code

neurox

A parallel & distributed asynchronous simulator of extended Hodgkin-Huxley neuron models

neuroagent

LLM agent made to communicate with different neuroscience related tools

me-types-mapper