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79 projects

bluepyemodel

Last released

Blue Brain Python Electrical Modeling Pipeline

NMODL-nightly

Last released

NEURON Modeling Language Source-to-Source Compiler Framework

dir-content-diff

Last released

Simple tool to compare directory contents.

synthesis-workflow

Last released

Workflow used for synthesis and its validation.

neurocollage

Last released

A tool to create 2D morphology collage plots based on matplotlib.

axon-synthesis

Last released

A package to synthesize artificial axons

blue-brain-data-push

Last released

Package creating resource payloads from atlas datasets and push them along with the corresponding dataset files into Nexus.

efel

Last released

Electrophys Feature Extract Library (eFEL)

region-grower

Last released

Synthesize cells in a given spatial context.

diameter-synthesis

Last released

Diametrize cells.

data-validation-framework

Last released

Simple framework to create data validation workflows.

connectome-manipulator

Last released

A connectome manipulation framework for SONATA circuits

blue-brain-atlas-pipeline

Last released

Package defining a SnakeMake pipeline to create the Blue Brain Atlas datasetsand push them into Nexus.

bba-pipeline

Last released

Package defining a SnakeMake pipeline to create the Blue Brain Atlas datasetsand push them into Nexus.

blue-brain-token-fetch

Last released

Package to perform fetching and automatic refreshing of the Nexus access token using Keycloak. Using the CLI you can choose to either have its value periodically written in the file whose path is given in input or either have it periodically printed on the console output.

bluepyopt

Last released

Blue Brain Python Optimisation Library (bluepyopt)

bluepymm

Last released

Model Management Python Library (bluepymm)

scholarag

Last released

Pipelines for RAG on scientific papers

neuroagent

Last released

Search agent for neuroscience.

scholaretl

Last released

ETL for parsing scientific papers.

bluepyefe

Last released

Blue Brain Python E-feature extraction

axon-projection

Last released

A code that analyses long-range axons provided as input, and classify them based on the brain regions they project to.

emodel-generalisation

Last released

Generalisation of neuronal electrical models with MCMC

libsonata

Last released

SONATA files reader

bbp-workflow

Last released

Automated pipelines of batch jobs using python and the luigi framework

neurom

Last released

NeuroM: a light-weight neuron morphology analysis package

morphio

Last released

A neuron morphology IO library

ngv-ctools

Last released

NGV Architecture c++ modules

knowledge-graph-inference

Last released

Tools for performing knowledge inference.

atlas-densities

Last released

Library containing command lines and tools to compute volumetric cell densities in the rodent brain

bbp-atlas-pipeline-validator

Last released

A pipeline validator for Blue Brain Project

currentscape

Last released

Module to easily plot currentscape.

EModelRunner

Last released

Runs cells from Blue Brain Project cell packages, such as sscx, synapse plasticity, etc.

bluecellulab

Last released

Biologically detailed neural network simulations and analysis.

blueetl

Last released

Multiple simulations analysis tool

entity-management

Last released

Access to production entity management

morphology-workflows

Last released

Workflows used for morphology processing.

cgal-pybind

Last released

Python bindings for some CGAL classes

fz-td-recipe

Last released

Read and modify parameters used in neuroscientific in silico circuit building.

AstroVascPy

Last released

Simulating blood flow in vasculature

brayns

Last released

Brayns Python API

morph-tool

Last released

A collection of CLIs and python function related to morphology handling

multiscale-run

Last released

MultiscaleRun is a Python package to run brain cells simulation at different scales. It orchestrates the coupling between several brain simulators like Neuron and STEPS but also solvers like AstroVascPy for the cerebral blood flow. The package also embeds a Julia solver to simulate the astrocytes activity.

neurodamus

Last released

A BBP Simulation Control application for NEURON

atlas-placement-hints

Last released

Library containing command lines and tools to compute placement hints

functionalizer

Last released

A PySpark implementation of the Blue Brain Project Functionalizer

blue-cwl

Last released

Common Workflow Language inspired workflow definitions.

brainbuilder

Last released

BrainBuilder is a tool to define the cells that will compose a circuit.

psp-validation

Last released

PSP analysis tools

neuroc

Last released

NeuroC: a collection of tools for morphology cloning applications

nexusforge

Last released

Building and Using Knowledge Graphs made easy.

ArchNGV

Last released

NGV architecture modules

brain-indexer

Last released

A spatial index implementation for spheres, morphologies and synapses

NeuroR

Last released

A morphology repair tool

plotly-helper

Last released

Package that makes plotly easy

vascpy

Last released

Vasculature API

TMD

Last released

A python package for the topological analysis of neurons.

NeuroTS

Last released

Synthesis of artificial neurons using their topological profiles package.

blueetl-core

Last released

Core transformations for BlueETL

Connectome-Utilities

Last released

Complex network representation and analysis layer

voxcell

Last released

Voxcell is a small library to handle probability distributions that have a spatial component and to use them to build collection of cells in space.

atlas-splitter

Last released

CLI to split atlas regions and modify annotations accordingly

BluePyParallel

Last released

Provides an embarrassingly parallel tool with sql backend.

sphinx-bluebrain-theme

Last released

Blue Brain Project theme for Sphinx

bluepysnap

Last released

Simulation and Neural network Analysis Productivity layer

atlas-direction-vectors

Last released

Commands to compute direction vectors in volumetric brain regions. Direction vectors are 3D unit vectors associated to voxels of a brain region. They represent the directions of the fiber tracts.

bioexplorer

Last released

Python API for the Blue Brain BioExplorer

atlas-commons

Last released

Library containing common functions to build atlases

nrn-modeldb-ci

Last released

NEURON ModelDB CI tools

brion

Last released

BlueBrain I/O Library

luigi-tools

Last released

Tools to work with luigi.

NMODL

Last released

NEURON Modeling Language Source-to-Source Compiler Framework

bluepyentity

Last released

NEXUS Productivity Layer

MVDTool

Last released

Python bindings to the MVD3 neuroscience file format

bluegraph

Last released

Knowledge Graphs analytics.

rockets

Last released

Rockets python client

basalt

Last released

Graph API powered by RocksDB persistent key-value store for fast storage

flake8-oist-steps

Last released

Check usage STEPS subcellular simulator

hpcbench

Last released

Specify and run your benchmarks

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