Brain Python Packages

pybv

A lightweight I/O utility for the BrainVision data format, written in Python.

bluecellulab

Biologically detailed neural network simulations and analysis API

brainglobe-atlasapi

A Python interface to access neuroanatomical atlases

siibra

Software interfaces for interacting with brain atlases - Python client

obsidian-wiki

Framework for AI agents to build and maintain a digital brain through Obsidian wiki | Memory System for Agents

mne-lsl

A framework for real-time brain signal streaming with MNE-Python.

neurite

Neural networks toolbox focused on medical image analysis

cnsl

Security Layer CNSL Brain

fafbseg

Tools to work with the FlyWire connectome. Fully interoperable with navis.

bg-atlasapi

A Python interface to access neuroanatomical atlases

flybrains

Transforms for navis that enable mapping between different Drosophila template brains.

brainreg

Automated 3D brain registration with support for multiple species and atlases.

brainles-preprocessing

preprocessing tools for multi-modal 3D brain imaging

neurodamus

A BBP Simulation Control application for NEURON

nigsp

NiGSP: a module for graph signal processing on neuroimaging data

pyllusion

A Parametric Framework to Generate Visual Illusions using Python

graybox

A local-first, long-term memory for anything you'd otherwise forget.

mindm

MindManager Automation and Integration on Windows and MacOS

brayns

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

mindm-mcp

MindManager MCP Server for Automation and Integration on Win + macOS

brainreg-napari

Automated 3D brain registration in napari with support for multiple species and atlases.

deepparcellation

DeepParcellation: deep learning for robust brain MRI parcellation of elderly East Asians

brainload

A python module designed to reduce your brain load while accessing FreeSurfer brain surface and morphometry data files of single subjects and groups.

visbrain

A multi-purpose GPU-accelerated open-source suite for brain data visualization