Open Source MATLAB Software

The auditory modeling toolbox (AMT) is a Matlab/Octave toolbox for the development and application of auditory computational models. Over 50 auditory models implemented in Matlab, Octave, C, C++, and Python can be run from Matlab and Octave, on Windows and Linux. The AMT provides a well-structured in-code documentation, includes auditory data required to run the models. It integrates functionality to reproduce the model predictions. Model implementations can be evaluated in two stages, by running so-called demonstrations which are quick presentations of a model and by starting so-called experiments aimed at reproducing results from the corresponding publications. Easy installation and user-friendly access help students and researchers to work with and to advance existing models.

Octave Forge is a central location for collaborative development of packages for GNU Octave. The Octave Forge packages expand Octave's core functionality by providing field specific features via Octave's package system. See https://octave.sourceforge.io/packages.php for a list of all available packages. GNU Octave is a high-level interpreted language, primarily intended for numerical computations. It provides capabilities for the numerical solution of linear and nonlinear problems, and for performing other numerical experiments. It also provides extensive graphics capabilities for data visualization and manipulation. Octave is normally used through its interactive command line interface, but it can also be used to write non-interactive programs. The Octave language is quite similar to Matlab so that most programs are easily portable. Refer to https://www.octave.org for more information.

ExpSuite is a software framework for applications to perform psychoacoustical experiments. ExpSuite allows acoustic and electric stimulation for normal hearing and cochlear implant listeners, respectively.

LINE is an open-source software package to analyze queueing models via analytical methods and simulation. The solver is available for MATLAB, Java (alpha version) and Python (alpha version). LINE features algorithms for the solution of open queueing systems (e.g., M/M/1, M/M/k, M/G/1, ...), open and closed queueing networks, and layered queueing networks. Additional details are available on the project website: http://line-solver.sf.net.

An open source software-defined Global Navigation Satellite Systems (GNSS) receiver written in C++ and based on the GNU Radio framework.

Eventer is a programme designed for the detection of spontaneous synaptic events measured by electrophysiology or imaging. The software combines deconvolution for detection, and variable length template matching approaches for screening out false positive events. Eventer also includes a machine learning-based approach allowing users to train a model to implement their ‘expert’ selection criteria across data sets without bias. Sharing models allows users to implement consistent analysis procedures. The software is coded in MATLAB, but has been compiled as standalone applications for Windows, Mac and Linux. Please visit the official Eventer website for more info https://eventerneuro.netlify.app/ While the paper is in preparation, please cite as; Winchester, G., Liu, S., Steele, O.G., Aziz, W. and Penn, A.C. (2020) Eventer. Software for the detection of spontaneous synaptic events measured by electrophysiology or imaging. http://doi.org/10.5281/zenodo.3991676

DDE-BIFTOOL is a set of routines for performing numerical bifurcation analysis of delay-differential equations, running in Matlab or Octave[2]. It was originally created by Koen Engelborghs at KU Leuven (Belgium). [1] Tutorial demo <http://ddebiftool.sourceforge.net/demos/neuron/html/demo1_simple.html> shows the output of an illustrative demo. <http://ddebiftool.sourceforge.net> links to documentation, a list of contributors and current maintainers. The original DDE-BIFTOOL webpage at KU Leuven [1] stores versions up to 3.0 and their documentation. [1] <http://twr.cs.kuleuven.be/research/software/delay/ddebiftool.shtml> [2] <https://www.gnu.org/software/octave> Further tutorials (by M Bosschaert) at <https://sites.google.com/a/uhasselt.be/maikel-bosschaert/home> (pdf files).

You can do advanced analysis using the raw data from RIXS .h5 file. It has several tabs using which you can do different types of analysis, thereby utilizing the full potential of the Veritas beamline. Some of the features in addition to standard RIXS data analysis are: - continuous and discrete RIXS maps, - RIXS spectromicroscopy, - radiation damage analysis, - Q calibrations.

Data visualization, generate metadata log files, save spectra in .txt format for further advanced analysis.

CyberUnits is a cross-platform class library for rapid development of high-performance computer simulations in life sciences. It supports modelling for biomedical cybernetics and systems biology with Object Pascal.

A cross-platform, open-source, alternative to NIST REFPROP. Based on reference-accuracy equations of state and transport property correlations for refrigerants like Water, CO2, R134a, Nitrogen, Argon, Ammonia, Air, R404a, R410a, Propane and many others. A selection of secondary working fluid properties are also available. Can also make use of REFPROP when available. In addition, calculations for Humid Air Properties based on ASHRAE RP-1485 are provided. Wrappers are available for MATLAB, Octave, Python, C#, Fortran and many more.

mTRF-Toolbox is a MATLAB package for modelling multivariate stimulus-response data, suitable for neurophysiological data such as MEG, EEG, sEEG, ECoG and EMG. It can be used to model the functional relationship between neuronal populations and dynamic sensory inputs such as natural scenes and sounds, or build neural decoders for reconstructing stimulus features and developing real-time applications such as brain-computer interfaces (BCIs). Toolbox Paper: http://dx.doi.org/10.3389/fnhum.2016.00604 Methods Paper: https://doi.org/10.3389/fnins.2021.705621

Edit, lint, debug, and run MATLAB in Emacs

* Fast C++ library for linear algebra (matrix maths) and scientific computing * Easy to use functions and syntax, deliberately similar to Matlab / Octave * Uses template meta-programming techniques to increase efficiency * Provides user-friendly wrappers for OpenBLAS, Intel MKL, LAPACK, ATLAS, ARPACK, SuperLU and FFTW libraries * Useful for machine learning, pattern recognition, signal processing, bioinformatics, statistics, finance, etc. * Downloads: http://arma.sourceforge.net/download.html * Documentation: http://arma.sourceforge.net/docs.html * Bug reports: http://arma.sourceforge.net/faq.html * Git repo: https://gitlab.com/conradsnicta/armadillo-code

A Matlab toolkit for all aspects of EEG/ERP analysis, especially PCA. If you run into a problem, please send me a note and I'll fix it. The tutorial is in the documentation folder and the tutorial data is a separate download (tutorial data.zip). The tutorial file has full install instructions. For all platforms supported by Matlab.

BioSig is a software library for processing of biomedical signals (EEG, ECG, etc.) with Matlab, Octave, C/C++ and Python. About 50 different data formats are supported.

Development platform and toolboxes for parameter continuation, e.g., bifurcation analysis of dynamical systems and constrained design optimization. This material is based upon work partially supported by the National Science Foundation under Grant No. 1016467 and the Danish research council (FTP) under the project number 0602-00753B. Any opinions, findings, and conclusions or recommendations expressed on this site are those of the authors and do not necessarily reflect the views of the National Science Foundation or other funding sources. In the most recent release, documentation and tutorials are available for the following toolboxes: * ep : continuation and bifurcations of equilibrium points * coll : continuation of constrained collections of trajectory segments, including multi-segment boundary-value problems * po : continuation and bifurcations of periodic orbits in smooth and hybrid systems * recipes : collection of examples from the book Recipes for Continuation

Quaternion toolbox for Matlab is a toolbox that extends Matlab to handle matrices of quaternions with real and complex components. Many Matlab operators and functions are overloaded to work for real quaternion and complexified quaternion matrices. Version 2 of the toolbox adds support for octonions. Version 3 adds symbolic computation with quaternions, provided that you have the Symbolic Math Toolbox (if you don't the numeric functionality will still work).

GeographicLib is a small C++ library for: geodesic and rhumb line calculations; conversions between geographic, UTM, UPS, MGRS, geocentric, and local cartesian coordinates; gravity (e.g., EGM2008) and geomagnetic field (e.g., WMM2020) calculations.

iElectrodes is a free and open-source Matlab® toolbox to obtain intracranial electrode coordinates from MRI and CT images. Precise and reliable localization can be achieved fast and in a semiautomatic way with minimal user intervention. The toolbox works with ECoG (subdural grids and strips) and SEEG (depth) electrodes. The new GridFit algorithm can precisely localize high-density electrodes (up to 3mm). Brain parcellations (atlas) and surfaces can be imported to aid 2D and 3D visualization and anatomical localization can be done in native or normalized space. You can plan grid and depth electrode array implantations and compare them with the implanted locations. Additional scripts are provided for image coregistration using SPM, Freesurfer pipeline integration, etc. Visit the Wiki tab to learn more about the toolbox. We are trying to make iElectrodes a great toolbox every day. We strongly appreciate your feedback. iElectrodes is developed by Alejandro Blenkmann

MatCont is a Matlab software project for the numerical continuation and bifurcation study of continuous and discrete parameterized dynamical systems. Leaders of the project are Willy Govaerts (Gent,B) and Yuri A. Kuznetsov (Utrecht,NL) and Hil G.E. Meijer (UT, Enschede, NL). Matcont for ODEs and MatcontM for Maps Publishing a paper using our software? That's great. Please do us a favour and cite: New features of the software MatCont for bifurcation analysis of dynamical systems. A. Dhooge, and W. Govaerts, Yu.A. Kuznetsov, H.G.E. Meijer and B. Sautois, MCMDS 2008, Vol. 14, No. 2, pp 147-175 In case you're stuck, use the forum, but to get a good answer provide: 1. What command do you give when this appears? Provide the exact steps. Stating "no convergence" is not enough. 2. Most procedures are explained in the Tutorials. There is a manual with detailed descriptions of the data.

LabPlot is a FREE, open source and cross-platform Data Visualization and Analysis software accessible to everyone.

Software developed for the analysis of Neutron Reflectivity data.

This is a toolbox (software library) for computing with matrices of Clifford algebra multivectors in MATLAB. It is designed to handle numerical computations with matrices as far as these are defined for matrices of multivectors. The toolbox is designed to work in the same way as MATLAB's own functions by overloading standard MATLAB functions with Clifford multivector versions. The toolbox can compute with any Clifford algebra with signature (p,q,r) but only with one algebra at a time. From version 2 of the toolbox onwards, computation is also supported with conformal geometric algebras (CGA), based on an underlying Clifford algebra to provide the numerical computation. The additional functionality does not impact on the original Clifford algebra functions of the toolbox. There is a (low traffic) mailing list for release announcements etc. See the Mailing Lists menu to subscribe.

CFDTool - An Easy to Use CFD Toolbox for MATLAB ======================================= CFDTool is a MATLAB® Computational Fluid Dynamics (CFD) Toolbox for modeling and simulation of fluid flows with coupled heat transfer. Based on FEATool Multiphysics (https://www.featool.com), CFDTool is specifically designed to make fluid dynamics and heat transfer simulations both easy and enjoyable. - Completely stand-alone and self-contained toolbox - Fully integrated and easy to use Graphical User Interface (GUI) - Modeling and simulation in 1D, 2D, 3D, and axisymmetric/swirl/cylindrical coordinate systems - Seamless OpenFOAM® GUI and SU2 CFD solver integrations (https://www.featool.com/tutorial/2021/05/03/easy-openfoam-gui) - Built-in geometry and CAD tools - Automatic mesh and grid generation - Pre-defined equations and boundary conditions for: + Incompressible viscous fluid flows (Navier-Stokes equations) + Compressible inviscid flows (Euler equations) + Heat conduction