Brain Python Packages

pybv

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

brainglobe-atlasapi

A Python interface to access neuroanatomical atlases

bluecellulab

Biologically detailed neural network simulations and analysis API

neurite

Neural networks toolbox focused on medical image analysis

siibra

Software interfaces for interacting with brain atlases - Python client

mne-lsl

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

brainreg

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

bg-atlasapi

A Python interface to access neuroanatomical atlases

fafbseg

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

brainles-preprocessing

preprocessing tools for multi-modal 3D brain imaging

flybrains

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

nigsp

NiGSP: a module for graph signal processing on neuroimaging data

neurodamus

A BBP Simulation Control application for NEURON

mindm

Python library for interacting with local installed MindManager(tm) on Windows and MacOS platform.

deepparcellation

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

brayns

Brayns Python API

brainseg-containers

wrapper for brain segmentation tools

brainreg-napari

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

mindm-mcp

MindManager MCP Server for Automation and Integration on Win + macOS

freesurfer-surface

Python Library to Read and Write Surface Files in Freesurfer's TriangularSurface Format

brainload

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

mrqa

mrQA: tools for quality assurance in medical imaging datasets, including protocol compliance

pyllusion

A Parametric Framework to Generate Visual Illusions using Python

cvasl

A package for analysis of MRI