A curated list of awesome neuroscience libraries, software and any content related to the domain.
This page lists names, links and short descriptions. The original list on GitHub is the source and belongs to its authors.
is the study of how the nervous system develops, its structure, and what it does. Neuroscientists focus on the brain and its impact on behavior and cognitive functions. Traditionally, neuroscience has been seen as a branch of biology, but it has grown to encompass a wide range of interdisciplinary…
Library for creating and simulating large-scale brain models.
Timeseries analysis for neuroscience data.
Module for performing statistical learning/machine learning on NeuroImaging data.
Toolbox for analysis of MR diffusion imaging.
Community-driven software for processing time-resolved neural signals including electroencephalography (EEG) and magnetoencephalography (MEG).
Provides read and write access to some common medical and neuroimaging file formats.
Package for running psychology and neuroscience experiments. It allows for creating psychology stimuli in Python.
Free, open source simulator for spiking neural networks.
Platform-independent lightweight Python library for designing and conducting timing-critical behavioural and neuroimaging experiments.
Package for simulating spiking neural networks for reinforcement & machine learning.
Framework designed to unify spike-sorting technologies
NiMARE is a Python package for neuroimaging meta-analyses
Markerless pose estimation toolkit for animal behavior analysis using transfer learning with deep neural networks.
Computational toolbox for large-scale calcium imaging data analysis, including motion correction, source extraction, and deconvolution.
Library for the analysis of electrophysiology data, providing tools for spike train statistics, signal processing, and connectivity analysis.
Simulation environment for modeling individual neurons and networks of neurons, widely used in computational and systems neuroscience.
Workflow engine providing a uniform Python interface to existing neuroimaging packages (FSL, FreeSurfer, AFNI, SPM, ANTs) and flexible pipeline composition.
Python API for reading and writing Neurodata Without Borders (NWB) files, the community standard data format for cellular-based neurophysiology data.
Robust preprocessing pipeline for fMRI data that adapts to nearly any dataset and produces analysis-ready outputs with minimal manual intervention.
Toolkit for accessing and processing data from the Allen Institute for Brain Science, including the Allen Brain Atlas and Allen Brain Observatory.
Pipeline for cell detection and signal extraction from large-scale two-photon calcium imaging recordings.
Package for representing electrophysiology data in Python, with readers for a wide range of neurophysiology file formats.
Sensorimotor learning framework based on the thousand brains theory of the neocortex.
A Modular Python Framework for No-Code Development of EEG Brain-Computer Interfaces supporting end-to-end BCI design.
Open software for simulating dynamical systems in neuroscience.
Open-source application dedicated to the analysis of brain recordings (MEG, EEG, fNIRS, ECoG, depth electrodes and multiunit electrophysiology).
Interactive Matlab toolbox for processing continuous and event-related EEG, MEG and other electrophysiological data.
Toolbox for MEG and EEG analysis.
Free set of Matlab and GNU Octave functions for vision and neuroscience research.
Free and open source software for the analysis of brain imaging data sequences (fMRI, PET, SPECT, EEG, MEG).
Minimalistic visualiser that can perform ray-traced rendering of neurons. Ray-tracing can help to highlight areas of neural circuits where cells touch each other and where synapses are being created leading to a better understanding of how individual cells and subsequently the brain functions.
Library exposing set of web-based 3D visualization tools primarily targetting neuroimaging.
Library for creating and running behavioural experiments in a web browser.
Package for the (3D) visualisation and analysis of biological image data, especially tracings of single neurons.
Package for performing graph theory analyses of brain MRI data.
Open-access electronic textbook and interactive courseware covering neuroscience in depth. Provided by the Department of Neurobiology and Anantomy at the University of Texas Medical School at Houston.
Text which provides an in-depth introduction to the main ideas in the computational cognitive neuroscience, a field which aims to understand the brain by using biologically based computational models.
Open-access electronic textbook that covers computational and theoretical neuroscience. Provided by École Polytechnique Fédérale de Lausanne (EPFL).
Book companion to Andy's Brain Blog. Provides an introduction to working in a Unix environment, fMRI analysis, and commonplace neuroimaging tools and topics.
Textbook for the NiPraxis course, covers fundamental concepts in neuroimaging analysis and how they relate to the wider world of statistics, engineering and computer science. Learn how to work with data and code to get a deeper understanding of how fMRI methods work, how they can fail, how to fix…
Discover magazine's neuroscience blog which offers a look at the latest developments in neuroscience, psychiatry and psychology through a critical lens.
A large collection of articles, tutorials, and videos, covering many of the popular neuroimaging tools and methods.
are free Web-based distance learning programs that are designed for the participation of large numbers of geographically dispersed students. MOOCs may be patterned on a college or university course or may be less structured.
Introduction to the mammalian nervous system, with emphasis on the structure and function of the human brain.
Provides an introduction to basic computational methods for understanding what nervous systems do and for determining how they function.
Explores the functional organization and neurophysiology of the human central nervous system, while providing a neurobiological framework for understanding human behavior.
Jupyter notebooks for the three-week intensive summer school in computational neuroscience.
Neuroscience topic on Quora contains answers, often by experts, to questions ranging from basic to advanced.
Subreddit for discussion of neuroscience news, research, and questions.
Psychology and neuroscience StackExchange site.
A list for discussion of neuroimaging analysis in Python. Among other things, this list is home to discussions concerning NiPy projects (including NiBabel, Nilearn, dipy, MNE-Python, and more).
Harvard Mahoney Neuroscience Institute's quarterly e-newsletter.
A mailing list that delivers weekly easy-to-read summaries of the latest neuroscience publications.
High-quality open neuroscience datasets.
Simulator for a historical computational model based on neurons.
Searchable database for computational neuroscience models.
Searchable database of neurons and their electrophysiological properties (extracted from literature)
Interactive mindmap containing curated resources for anyone interested in learning neuroscience.
List of summer (and seasonal) summer schools in neuroscience and related fields.
Neuroscience podcast where real neuroscientists sit down and talk about the brain.
Summer school in neuroimaging and data science, held at the University of Washington eScience Institute. Lectures are available through the institute's YouTube channel.
SORTED: a list of interesting science ideas and links (cognitive/neuro & data science)
Brain Imaging Data Structure: community standard for organizing neuroimaging and behavioral data, supported by most modern neuroimaging tools.
Free and open platform for sharing and analyzing neuroimaging data (MRI, MEG, EEG, iEEG, ECoG, ASL, PET).
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