Basic (demo) 2-photon microscope scanning software

sync2brain's bossdevice RESEARCH Application Programmable Interface (API) for MATLAB.

Generate optic flow video files

The MATLAB software toolbox for MEG and EEG analysis

Core tools required for running Canlab Matlab toolboxes. The heart of this toolbox is object-oriented tools that enable interactive analysis

Quickly create publication-quality plots with a ggplot/seaborn like approach: automatic colors & subplots, stats, violin/box plots, etc.

complex figures using high-level object-oriented code.Gramm has been used in several publications in the field of neuroscience, from human psychophysics (Morel et al. 2017), to electrophysiology (Morel et

Let's build brains together!

A neurorobot is a robot controlled by a computer simulation of a biological brain. At Backyard Brains we use neurorobots to teach neuroscience in schools. To learn more, see this demo video and our

Brainstorm: Open source application for MEG/EEG data analysis

A MATLAB package for modelling multivariate stimulus-response data

Multivariate Temporal Response Function (mTRF) Toolbox: A MATLAB Toolbox for Relating Neural Signals to Continuous Stimuli. Frontiers in Human Neuroscience 10:604. https://doi.org/10.3389/fnhum.2016.00604Crosse

Tools for hyperpolarized MRI acquisition and reconstruction methods

Robust pelectrophysiology tools with GPU acceleration

Matlab-based spike sorter for NEV files

A toolbox for processing electrophysiological data

The most advanced toolbox for neuroscience stimulus presentation, response collection and data collection.

Psychophysics Toolbox Version 3 (or short "PTB") extends MATLAB with functions for research grade neuroscience stimulus presentation and response collection. The PTB core routines provide trustworthy

EXTRACT is a tractable and robust automated cell extraction tool for calcium imaging, which extracts the activities of cells as time series

This is a pipeline that produces CNN-based segmentations of the striatal regions of the brain based on a structural T1w image.

Nizambad, Yash Patel and Jared X. Van Snellenberg, at the Cognitive Neuroscience and Psychosis Lab at Stony Brook University School of Medicine.The striatal regions of interest (ROIs) segmented are the

MATLAB code for reading and writing CIFTI connectivity files

3D Image Viewer with ROI tools for Matlab ( NIFTI viewer, Manual segmentation )

An algorithm for unsupervised discovery of sequential structure

A MATLAB toolbox to create metadata instances using the openMINDS metadata models

openMINDS Metadata Models for MATLAB MATLAB package for the openMINDS metadata framework for linked data in neuroscience. The package contains all the latest openMINDS schemas as

Single-level and multi-level mediation analyses for any kind of data, with bootstrap-based significance testing.

A MATLAB toolbox for running neurophysiological experiments and managing data

Rigbox is a high-performance, open-source software toolkit developed in an object-oriented programming paradigm to facilitate a modular approach to designing behavioral neuroscience experiments

JAABA: The Janelia Automatic Animal Behavior Annotator

Cell registration across multiple sessions in large-scale calcium imaging data

Spike Extraction Tool

Anakyze spike trains exported from multi-electrode arrays

Brainstorm Custom Processes Repository for EEG Analysis

A MATLAB toolbox for interacting with the Allen Brain Observatory

mrTools - matlab based tools for fMRI

Group ICA/IVA software (MATLAB)

Group ICA/IVA software (MATLAB)

Fast and accurate spike sorting toolbox

MATLAB toolbox for spike-train community detection

A Matlab interface for reading and writing NWB files.

Recognize 3D structures in volumetric images

ObjectFinder is a MATLAB app that allows you to recognize a large number of small structures within a three-dimensional image volume. This app is developed for neuroscience research, with the purpose

Toolbox for designing spectral-spatial RF pulses for MRI and MR spectroscopy applications

Long-T2 suppression RF pulses for MRI of semi-solid tissues

Parameter-free statistical testing package with one-sample and two-sample tests for point event data and (auto-correlated) time-series data

A MATLAB package for multivariate permutation testing and effect size measurement

normal. Behav Res, 49:294–309.Hentschke H, Stuttgen MC (2011) Computation of measures of effect size for neuroscience data sets. Eur J Neurosci, 34:1887–1894.Cohen J (1969) Statistical power for the

MRI sequence and orientation identification app

Joint Opposite Selection enhanced Mountain Gazelle Optimizer for Brain Stroke Classification

A collection of apps and modules for processing, analysis and visualization of two-photon imaging data.

Detection and removal of an artifactual shared signal between simultaneously acquired slices in unprocessed multiband fMRI.

Wrapper for FSL PALM to use an Excel file to determine input options.

Multiband Censoring Optimization Tool (MCOT) for Resting-State Functional Connectivity Analyses

: 35033673; PMCID: PMC9057309.Cognitive Neuroscience and Psychosis (CNaP) Lab / Multi-Modal Translational Imaging (MMTI) LabDepartment of Psychiatry and Behavioral Health, Renaissance School of Medicine at

This repository is a demo of a deep-learning EEG model in MATLAB. This corresponds to a published paper in the description.

Neuroscience (SCCN). Data preprocessing included the mean baseline removal, down-sampling to 128 Hz, band-pass filtering (0.25-25 Hz), and re-referencing to the averaged mastoids. The example demonstrates the

A MATLAB implementation of the DeepInterpolation principle.

applications to systems neuroscience data.Getting startedGet oriented and get started using MATLAB Online. This will orient you to several live script examples available to guide new users.You can also try one

Matlab interface to the siibra toolsuite

incorporation of brain region features from different sources into reproducible neuroscience workflows. siibraLab is a Matlab^® toolbox for accessing functions provided in siibra.siibra provides structured

Quantitative Magnetic Resonance Imaging Made Easy with qMRLab: Use GUI or CLI to fit and simulate a myriad of qMRI models.

Award, ISMRM 2018Sponsored byInstitut TransMedTech Montréal (ITMT)Canadian Open Neuroscience Platform (CONP)International Society of Magnetic Resonance in Medicine (ISMRM)CitationIf you use qMRLab in you

Interface for using finite elements in inverse problems with complex domains

Automated manual curation and cell classification of spike-sorted electrophysiology data in MATLAB. Fine-tuned for kilosorted Neuropixels da

Short undergraduate course taught at University of Pennsylvania on computational and theoretical neuroscience.

Short undergraduate course taught at University of Pennsylvania on computational and theoretical neuroscience. Provides an introduction to programming in MATLAB, single-neuron models, ion channel

MATLAB / Octave tools for BIDS datasets

Free and open source software for the analysis of brain imaging data sequences

The Rodent Sleep Spindle Detector app can identify sleep spindles within intracranial EEG (iEEG) recordings.

MBL NS&B Leech Module

Repository for experiments with BackyardBrains Hardware

General purpose optostimulation system

This video-based course introduces learners to the power of MATLAB in different areas of neuroscience. Each module covers a different topic.

Essentials of Neuroscience with MATLABThe Essentials of Neuroscience With MATLAB course was developed to provide advanced undergraduates and early graduate students with a basic familiarity with

DeepSqueak v3: Using Machine Vision to Accelerate Bioacoustics Research