awesome-neuroscience
Neuroscience toolkit
A curated collection of software and libraries for neuroscience research and development.
A curated list of awesome neuroscience libraries, software and any content related to the domain.
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Programming / Python | |||
| Nengo | 829 | 9 months ago | Library for creating and simulating large-scale brain models |
| Nitime | 244 | 15 days ago | Timeseries analysis for neuroscience data |
| Nilearn | 1,188 | 6 days ago | Module for performing statistical learning/machine learning on NeuroImaging data |
| DIPY | 716 | 13 days ago | Toolbox for analysis of MR diffusion imaging |
| MNE-Python | 2,724 | 6 days ago | Community-driven software for processing time-resolved neural signals including electroencephalography (EEG) and magnetoencephalography (MEG) |
| NiBabel | 654 | 27 days ago | Provides read and write access to some common medical and neuroimaging file formats |
| PsychoPy | 1,692 | 8 days ago | Package for running psychology and neuroscience experiments. It allows for creating psychology stimuli in Python |
| NuPic | 6,336 | about 1 year ago | Numenta Platform for Intelligent Computing is an implementation of Hierarchical Temporal Memory (HTM), a theory of intelligence based strictly on the neuroscience of the neocortex |
| Brian2 | 943 | 8 days ago | Free, open source simulator for spiking neural networks |
| expyriment | 114 | 9 days ago | Platform-independent lightweight Python library for designing and conducting timing-critical behavioural and neuroimaging experiments |
| BindsNET | 1,507 | about 1 month ago | Package for simulating spiking neural networks for reinforcement & machine learning |
| SpikeInterface | 526 | 10 days ago | Framework designed to unify spike-sorting technologies |
| NiMARE | NiMARE is a Python package for neuroimaging meta-analyses | ||
Programming / Matlab | |||
| Brain Dynamics Toolbox | Open software for simulating dynamical systems in neuroscience | ||
| BrainStorm | Open-source application dedicated to the analysis of brain recordings (MEG, EEG, fNIRS, ECoG, depth electrodes and multiunit electrophysiology) | ||
| EEGLAB | Interactive Matlab toolbox for processing continuous and event-related EEG, MEG and other electrophysiological data | ||
| FieldTrip | 848 | 10 days ago | Toolbox for MEG and EEG analysis |
| Psychtoolbox-3 | Free set of Matlab and GNU Octave functions for vision and neuroscience research | ||
| SPM | Free and open source software for the analysis of brain imaging data sequences (fMRI, PET, SPECT, EEG, MEG) | ||
Programming / C++ | |||
| Brayns | 291 | 6 days ago | 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 |
Programming / JavaScript | |||
| Brainbrowser | 353 | over 2 years ago | Library exposing set of web-based 3D visualization tools primarily targetting neuroimaging |
| jsPsych | Library for creating and running behavioural experiments in a web browser | ||
Programming / R | |||
| nat: NeuroAnatomy Toolbox | 64 | about 1 month ago | Package for the (3D) visualisation and analysis of biological image data, especially tracings of single neurons |
| brainGraph | 178 | 9 months ago | Package for performing graph theory analyses of brain MRI data |
Resources / Ebooks | |||
| Neuroscience Online | 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 | ||
| Computational Cognitive Neuroscience | 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 | ||
| Neuronal Dynamics | Open-access electronic textbook that covers computational and theoretical neuroscience. Provided by École Polytechnique Fédérale de Lausanne (EPFL) | ||
| Andy's Brain Book | Book companion to . Provides an introduction to working in a Unix environment, fMRI analysis, and commonplace neuroimaging tools and topics | ||
| NiPraxis | Textbook for the , 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 them, and how to develop new methods | ||
Resources / Blogs | |||
| Neuroskeptic | 's neuroscience blog which offers a look at the latest developments in neuroscience, psychiatry and psychology through a critical lens | ||
| The Neurocritic | Often critical takes on the most sensationalistic recent findings in Human Brain Imaging, Cognitive Neuroscience, and Psychopharmacology | ||
| The scicurious brain | Maintained by , this blog typically covers one research paper in a single entry | ||
| Action Potential | Forum operated by neuroscience editors at the journal, Nature | ||
| Andy's Brain Blog | A large collection of articles, tutorials, and videos, covering many of the popular neuroimaging tools and methods | ||
Resources / MOOCs | |||
| The Fundamentals of Neuroscience | Harvard & edX | Serves an introductory survery of topics in neuroscience and has no specific prerequisites, though some prior exposure to biology and/or chemistry can be helpful | ||
| Introduction to Neuroscience | MIT OCW | Introduction to the mammalian nervous system, with emphasis on the structure and function of the human brain | ||
| Computational Neuroscience | Coursera | Provides an introduction to basic computational methods for understanding what nervous systems do and for determining how they function | ||
| Medical Neuroscience | Explores the functional organization and neurophysiology of the human central nervous system, while providing a neurobiological framework for understanding human behavior | ||
| Neuromatch Academy | 2,671 | 7 days ago | Jupyter notebooks for the three-week intensive summer school in computational neuroscience |
Resources / Communities | |||
| Quora | Neuroscience topic on Quora contains answers, often by experts, to questions ranging from basic to advanced | ||
| List of neuroscience, psychology and cognitive science subreddits | |||
| StackExchange | Psychology and neuroscience StackExchange site | ||
| [email protected] | A list for discussion of neuroimaging analysis in Python. Among other things, this list is home to discussions concerning projects (including NiBabel, Nilearn, dipy, MNE-Python, and more) | ||
Resources / Newsletters | |||
| On The Brain | Harvard Mahoney Neuroscience Institute's quarterly e-newsletter | ||
| Comp-neuro | A mailing list that is is intended to address the broad range of research approaches and issues involved in the general field of computational neuroscience | ||
| BrainPost | A mailing list that delivers weekly easy-to-read summaries of the latest neuroscience publications | ||
Resources / Miscellaneous | |||
| Awesome Public Datasets - Neuroscience | 60,953 | 8 days ago | High-quality open neuroscience datasets |
| McCulloch & Pitts Neural Net Simulator | Simulator for a historical computational model based on neurons | ||
| ModelDB | Searchable database for computational neuroscience models | ||
| NeuronDB | Searchable database for of three types of neuronal properties: voltage gated conductances, neurotransmitter receptors, and neurotransmitter substances | ||
| NeuroElectro | Searchable database of neurons and their electrophysiological properties (extracted from literature) | ||
| Neuroscience Mindmap | Interactive mindmap containing curated resources for anyone interested in learning neuroscience | ||
| neuroSummerSchools | 215 | over 5 years ago | List of summer (and seasonal) summer schools in neuroscience and related fields |
| Brain Matters | Neuroscience podcast where real neuroscientists sit down and talk about the brain | ||
| NeuroHackademy | Summer school in neuroimaging and data science, held at the University of Washington eScience Institute. Lectures are available through the institute's | ||
| SORTED | 14 | 5 months ago | SORTED: a list of interesting science ideas and links (cognitive/neuro & data science) |
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