BioSig is a software library for processing of biomedical signals (EEG, ECG, etc.) with Matlab, Octave, C/C++ and Python. A standalone signal viewer supporting more than 30 different data formats is also provided.
Open source 3D Matlab Isogeometric Analysis Code
Isogeometric analysis (IGA) is a fundamental step forward in computational mechanics that offers the possibility of integrating methods for analysis into Computer Aided Design (CAD) tools and vice versa. The benefits of such an approach are evident, since the time taken from design to analysis is greatly reduced leading to large savings in cost and time for industry. The tight coupling of CAD and analysis within IGA requires knowledge from both fields and it is one of the goals of the MIGFEM is to provide a simple-to-understand IGA FEM code. The work is funded under the FP7 Initial Training Network Funding under grant number 289361 'Integrating Numerical Simulation and Geometric Design Technology.' If you use this code or inspired by it please cite the following reference in your work: VP Nguyen, C Anitescu, S Bordas, T Rabczuk. "Isogeometric analysis: an overview and computer implementation aspects". Mathematics and Computers in Simulation, (2015), pp. 89-116, Vol 117.
Individual Synaptic Activity Detection (ISAD)
ISAD is a peak detection software that detects individual (pre-)synaptic activity in microscopy images from neuronal cultures transfected with pHluorin. It computes synaptic signals from automatically segmented regions of interest and detects peaks that represent vesicle fusion events, thus, pre-synaptic activity. ISAD is based on MWA, which is a continuous wavelet transform based algorithm that employs multiple wavelets and is published as: Sokoll, S., Tönnies, K., and Heine, M. Detection of Spontaneous Vesicle Release at Individual Synapses Using Multiple Wavelets in a CWT-Based Algorithm. Med Image Comput Comput Assist Interv (MICCAI). 2012;15(Pt 1):165-72 ISAD is written in MATLAB and comes with a graphical user interface.
Mini-projets dealing with numerical physics.
This project is used to share code between collaborators on several projects pertaining to a class Numerical Physics class taken at Université Laval during the semester of Winter 2012.
XFEM implementation in MATLAB
The extended finite element method (XFEM) classified, one of the partition of unity method (PUM), allows discontinuities to be simulated independently of the mesh. This is possible by adding appropriate functions to the FE approximation basis, for example, the Heaviside function. The discontinuities can evolve in time, without a need for a conforming mesh. A MATLAB implementation of the XFEM written by VP Nguyen, is given here. The interaction of cracks and crack-inclusion interaction is modelled with XFEM framework. The elements intersected by discontinuity surface are sub-divided into quadrature subcells aligned with the discontinuity and higher order quadrature is adopted. The implementation is described in the following article: Meshless methods: a review and computer implementation aspects VP Nguyen, T Rabczuk, S Bordas, M Duflot, Mathematics and computers in simulation 79 (3), 763-813.
Directional Audio File Format
OpenDAFF is a free, open-source software package for directional audio data - like the directivity of microphones, speakers, as well as head-related transfer functions (HRTFs)
PID_control, real_time, matlab_simulink, xilinx_ise, fpga_spartan3e
Embedded system design (VHDL description) based on Xilinx's Spartan3E Development Kit to perform real-time PID control and monitoring of time critical plants such as brushless DC motors, maglevs... vimeo.com/channels/anie prezi.com/gpbycavq499c/anie/
Library for working with polyhedra
Allows user to convert from vertex to facet description and vice versa, convex union of two polyhedra, intercestion of two polyhedra, remove redundant vertices or inequalities from vertex or facet description.
A collection of m-files enhancing Matlab experience
The M-lab toolbox is a collection of m-files enhancing Matlab experience. It provides several useful tools for scientist, engineers and students. The tools range from very simple functions to very developped classes and high-level gestion of Matlab's interface. A transparent gestion of Matlab's path is provided in a project-oriented architecture.
A simple MATLAB implementation of Wilsons NRG-method
At the moment this code can calculate free electron gas and the SIAM (single-impurity-anderson-model) In this version, the only thing computed by the code is the energy flow. There is no calculation for any thermodynamic quantaties. The implementation is very slow and rather for educational purposes to get an idea of the NRG-method. For example: it is not considered, that only matrix elements between states, whos occupation number differs by one and S_z differs by 1/2. There is only implicit parallelisation implemented by vectorizing the time consuming parts of the code. This code is licensed under the CC BY-SA 3.0 license (http://creativecommons.org/licenses/by-sa/3.0/, http://creativecommons.org/licenses/by-sa/3.0/legalcode)
Spectroradiometer control for shipborne reflectance measurements
Spectroradiometer control for autonomous reflectance measurements from moving vessels. The software incorporates GPS signal parsing, control of the sensor platform viewing angle (stepper motor control), sensor triggering and data recording. Continue to the download section for the latest release information Rrs data processing code (the 'fingerprint technique') is also available - but moved to my github page: https://github.com/StefanSimis -------- Oct 2014: a beta version is available (20141006) Sep 2014 news: The latest version is 20140723, addressing some bugs. See the change log. Enjoy! Two Rflex units collected over 30,000 validated Rrs spectra on the Baltic Sea this year! See http://www.ferryscope.org for dissemination of these results in the coming years. ------ Licence: http://creativecommons.org/licenses/by-nc-sa/3.0/
This is a MATLAB toolbox to run a GA on any problem you want to model.
This is a toolbox to run a GA on any problem you want to model. You can use one of the sample problems as reference to model your own problem with a few simple functions. You can collaborate by defining new example problems or new functions for GA, such as scaling, selection or adaptation methods. In that case, you should then include your credits in the file, upload it to matlab central and contact the author. Suggestions are also welcome but naturally I won't be able to attend all of them.
Public MatLab toolbox for space science.
A MatLab toolbox with many simple and useful functions for analyzing data from Cluster, Champ and the future Swarm missions. Other functions for space science, magnetospheric and ionospheric research are included. The toolbox is designed to be as simple as possible. Each function can be learned and used individually. Check the webpage for the list of functions: http://eugen-library.sourceforge.net/
OpenRecon is an open-source software library for image reconstruction.
Moved to https://bitbucket.org/bid/openrecon
Systems Biology and Evolution Toolbox (SBEToolbox).
SBEToolbox (Systems Biology and Evolution Toolbox) is being developed in MATLAB as a menu-driven UI software to determine various statistics of the biological network. Some of its features include (but not limited to) algorithms to create random networks (small-world, ring lattice etc..), deduce clusters in the network (MCL, mCode, clusterOne) etc... ******************************************************************************************************************************** PROJECT MIGRATED TO GITHUB FOR FUTURE UPDATES: https://github.com/biocoder/SBEToolbox/releases ******************************************************************************************************************************** Reference ( In Press ): ================= Konganti K, Wang G, Yang E, Cai JJ* (2013). SBEToolbox: a Matlab toolbox for biological network analysis. Evolutionary Bioinformatics, 8:1-15
Dynamic Multispecies Metabolic Modeling framework
The Dynamic Multispecies Metabolic Modeling (DyMMM [dĭm]) framework is a mathematical modeling tool that integrates multiple constraint-based metabolic models into a single dynamic community metabolic model. The DyMMM framework was formerly known as the DMMM framework. Please use the following citation for bibliographical purposes: Zhuang, K., Izallalen, M., Mouser, P., Richter, H., Risso, C., Mahadevan, R., & Lovley, D. R. (2011). Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments. The ISME journal. Zhuang, K., Ma, E., Lovley, D. R., & Mahadevan, R. (2012). The design of long-term effective uranium bioremediation strategy using a community metabolic model. Biotechnology and Bioengineering.
An enhanced stable election protocol for wireless sensor network
While wireless sensor networks are increasingly equipped to handle more complex functions, in-network processing may require these battery powered sensors to judiciously use their constrained energy to prolong the effective network life time especially in a heterogeneous settings. Clustered techniques have since been employed to optimize energy consumption in this energy constrained wireless sensor networks. We propose an Enhanced-SEP clustering algorithm in a three-tier node scenario to prolong the effective network life-time. Simulation results shows that the Enhanced-SEP protocol achieves better performance in this respect, compared to other existing clustering algorithms such as LEACH and SEP in both heterogeneous and homogenous environments.
A Deterministic Energy-efficient Clustering protocol for WSN
Wireless sensor network (WSN) technologies have been employed in recent years for monitoring purposes in various domains from engineering industry to our home environment due to their ability to intelligently monitor remote locations. In this paper, we have developed a purely deterministic model that utilizes clustering to organize the WSN. We propose a deterministic energy-efficient clustering protocol that is dynamic, distributive, self-organizing and more energy efficient than the existing protocols. It utilizes a simplified approach which minimizes computational overhead-cost to self-organize the sensor network. Our simulation result shows a better performance with respect to energy consumption, which is reflected in the network lifetime in both homogeneous and heterogeneous settings when compared with the existing protocols. It is worthy of note that our approach approximates an ideal solution for balanced energy consumption in hierarchical wireless sensor networks.
A Toolbox for nonstationary Gabor transforms
A small LTFAT compatible MATLAB toolbox for computation of and experimentation with nonstationary Gabor transforms - Efficient analysis and synthesis algorithms - Dictionary generators - Frame-related operators - Dictionary and coefficient plotting - Sliced bandlimited filterbanks
Image Processing Ridge Tracker
self-consistent schrodinger-poisson code for core-shell nanowires
PAMELA (Pseudospectral Analysis Method with Exchange & Local Approximations) is a self-contained suite of MATLAB codes that can calculate electronic energies, densities, wavefunctions, and band-bending diagrams within a self-consistent Schrödinger-Poisson formalism.
Dynamics of quantum systems, controlled by external fields
WavePacket is a program package for numerical simulation of quantum-mechanical wavepacket dynamics for distinguishable particles. It can be used to solve one or more (i.e. coupled channels) time-independent or time-dependent (linear) Schrödinger and Liouville-von Neumann-equations. Optionally accounting for the interaction with external electric fields within the semiclassical dipole approximation, WavePacket can simulate modern experiments using ultrashort light pulses in photo-induced physics or chemistry, including optimal control. The extended graphical capabilities allow visualization 'on the fly', including Wigner transforms to phase space. WavePacket is especially suitable for teaching of quantum mechanics as well as for research projects in physics and chemistry, see also http://www.youtube.com/channel/UC1-0XnOHS0cE1H2pjvOsSBA While the Matlab version is already in a stable and mature state, the C++ version is still under construction aiming at an object-oriented rewrite.
Signature Recognition [Neural Networks ]
Signature Recognition [Neural Networks ] V4 : Simple and Effective Source Code Neural Networks Based Signature Recognition.