Neuroscience
Python
13_ENTRIES- 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.
- SpikeInterface
Framework designed to unify spike-sorting technologies
- NiMARE
NiMARE is a Python package for neuroimaging meta-analyses
Matlab
6_ENTRIES- 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++
1_ENTRIES- 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
2_ENTRIES- 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
2_ENTRIES- 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.
Ebooks
5_ENTRIES- 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 Γcole Polytechnique FΓ©dΓ©rale de Lausanne (EPFL).
- Andy's Brain Book
Book companion to Andy's Brain Blog. Provides an introduction to working in a Unix environment, fMRI analysis, and commonplace neuroimaging tools and topics.
- NiPraxis
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 them, and how to develop new methods.
Blogs
5_ENTRIES- 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.
- Andy's Brain Blog
A large collection of articles, tutorials, and videos, covering many of the popular neuroimaging tools and methods.
MOOCs
5_ENTRIESMassive 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
4_ENTRIES- 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.
- neuroimaging@python.org
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).
Newsletters
3_ENTRIES- 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
10_ENTRIES- 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.
- 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
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 YouTube channel.
- SORTED
SORTED: a list of interesting science ideas and links (cognitive/neuro & data science)