Explore @BlueBrain Open Source projects

The Blue Brain Project (@BlueBrain)

BlueBrain

Stars
2,985
Global Org. Rank 6,880 (Top 3 %)
Registered about 12 years ago
Most used languages

Python
46.4 %

C++
22.9 %

Scala
9.3 %

Jupyter Notebook
7.1 %

C
2.1 %

JavaScript
2.1 %

TypeScript
2.1 %

HTML
2.1 %

Others 5.6 %
Location 🇨🇭 Switzerland
Country Total Rank 138
Country Ranking

Scala
10

Nix
19

C++
26

Svelte 53

CMake 60

Python
66

Makefile 84

Jupyter Notebook
86

Vue 99

Dockerfile
245

HTML
251

TypeScript
278

C
318

Java
363

TeX
542

JavaScript
1,200

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

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

eFEL

Electrophys Feature Extraction Library

Tide

Tiled Interactive Display Environment

nmodl

Code Generation Framework For NEURON MODeling Language

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

NeuroTS

Topological Neuron Synthesis

nexus-forge

Building and Using Knowledge Graphs made easy

VessMorphoVis

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

Livre

Large-scale Interactive Volume Rendering Engine

RTNeuron

Interactive visualization framework for geometrically detailed neuron simulations

BlueGraph

Python framework for graph analytics and co-occurrence analysis

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

bluima

Natural Language Processing Toolkit for Neuroscience

Ultraliser

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

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

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.

EModelRunner

Runs cells from stand-alone packages.

osgTransparency

OSG render bins for transparent geometry

Atlas-Download-Tools

Search, download, and prepare brain atlas data.

BluePyEfe

BluePyEfe: Blue Brain Python E-feature extraction

cyme

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

BluePyMM

Blue Brain Python Cell Model Management

atlas-alignment

Blue Brain multi-modal registration and alignment toolbox

dash

Data Access and Sharing

libsonata

A python and C++ interface to the SONATA format

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

BlueCelluLab

Simulating and experimenting on single neurons

singlecell-emodel-suite

MOOC-hippocampus-network-simulation-2019

Jupyter Notebook

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.

morph-tool

nat

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

Jupyter Notebook

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

morphoclass

Neuronal morphology preparation and classification using Machine Learning.

nexus-search-webapp

The Searchable Knowledge-Graph Application

nexus-python-sdk

A Python API to interface with Nexus REST API

luigi-tools

Extra tools to work with the Luigi library

AstroVascPy

Vasculature blood flow computation and impact of astrocytic endfeet on vessels

voxcell

Tools to work with voxel based brain atlases.

bluepyentity

Manage entities within the knowledge graph

Jupyter Notebook

blueetl

Multiple simulations analysis tool

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".

nexus-iam

Nexus IAM Service

ConnectomeUtilities

Connectome Utilities

BlueNaaS-Subcellular

A web environment for the simulation of brain molecular networks.

morphology-workflows

Workflows used for morphology processing.

me-features-to-mo-ID-mapping

Monsteer

Interactive Supercomputing Tools and Library

hippocampus-workshop

Jupyter Notebook

Deep-Atlas

atlas-annotation

Align and improve brain annotation atlases

basalt

C++11 Graph Storage library

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

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

RenderingResourceManager

A Python based service managing rendering resources for visualization web services

morphology-documentation

Morphology Specifications used at BBP

nexus-cli

A Command Line Interface (CLI) for Nexus

sbt-nexus

An SBT Plugin for building Nexus Scala based projects

DMT

BluePyEModel

Blue Brain Python Electrical Modeling Pipeline

git-cmake-format

mod2c

Converter for mod files to C code

diameter-synthesis

Synthesize diameters of neuronal morphologies

morphology-suite

dir-content-diff

Simple tool to compare directory contents.

sphinx-bluebrain-theme

The Blue Brain Project's documentation theme.

neurox

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

EMSim

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

bluima_resources

Resource files for bluima

me-types-mapper

nexus-commons

Nexus Common Libraries