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Curated list of awesome neuroscience libraries, software and any content
related to the domain.
Neuroscience 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 fields that work together toward elucidating brain
function at multiple levels of investigation.
Contents
Programming
Software, libraries and frameworks for development purposes.
Python
-
Nengo - Library for
creating and simulating large-scale brain models.
-
Nitime - Timeseries
analysis for neuroscience data.
-
Nilearn - Module for
performing statistical learning/machine learning on NeuroImaging data.
-
DIPY - Toolbox for analysis
of MR diffusion imaging.
-
MNE-Python -
Community-driven software for processing time-resolved neural signals
including electroencephalography (EEG) and magnetoencephalography (MEG).
-
NiBabel - Provides read
and write access to some common medical and neuroimaging file formats.
-
PsychoPy - Package
for running psychology and neuroscience experiments. It allows for
creating psychology stimuli in Python.
-
NuPic - 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 - Free, open
source simulator for spiking neural networks.
-
expyriment -
Platform-independent lightweight Python library for designing and
conducting timing-critical behavioural and neuroimaging experiments.
-
BindsNET -
Package for simulating spiking neural networks for reinforcement &
machine learning.
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 - 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).
C++
-
Brayns - 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.
JavaScript
-
Brainbrowser -
Library exposing set of web-based 3D visualization tools primarily
targetting neuroimaging.
-
jsPsych - Library for creating
and running behavioural experiments in a web browser.
R
-
nat: NeuroAnatomy Toolbox
- Package for the (3D) visualisation and analysis of biological image
data, especially tracings of single neurons.
-
brainGraph - Package
for performing graph theory analyses of brain MRI data.
Resources
Interesting resources related to neuroscience.
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).
Blogs
-
Neuroskeptic
- Discover magazine’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
Scientific American,
this blog typically covers one research paper in a single entry.
-
Action Potential -
Forum operated by neuroscience editors at the journal, Nature.
MOOCs
Massive Open Online Courses (MOOCs)
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.
-
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
- Jupyter notebooks for the three-week intensive summer school in
computational neuroscience.
Communities
-
Quora -
Neuroscience topic on Quora contains answers, often by experts, to
questions ranging from basic to advanced.
-
Reddit
- List of neuroscience, psychology and cognitive science subreddits.
-
StackExchange -
Psychology and neuroscience StackExchange site.
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.
Miscellaneous
-
Awesome Public Datasets - Neuroscience
- 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.
-
Neuroscience Mindmap
- Interactive mindmap containing curated resources for anyone interested
in learning neuroscience.
-
neuroSummerSchools
- 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.
Contribute
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License
To the extent possible under law,
Akash Tandon has waived
all copyright and related or neighboring rights to this work.