Search Results for "environment-modules"
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Showing 38 open source projects for "environment-modules"
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CBIG
Computational Brain Imaging Group tools
CBIG is a comprehensive toolkit maintained by Thomas Yeo’s Computational Brain Imaging Group containing tools for processing and analyzing neuroimaging data—including fMRI preprocessing pipelines, brain parcellation algorithms, mental disorder subtyping models, fMRI dynamic models, registrations between brain spaces, and phenotypic prediction algorithms. After cloning/downloading this repository, please see README inside setup directory to see instructions on how to set up your local environment to be compatible with our repository. Brain parcellation tools (e.g., Yeo networks, Schaefer parcellations) for cortical mapping. -
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RLaB is an interactive, interpreted scientific programming environment which provides fast prototyping and program development. Its syntax is a combination of c (curly brackets for blocks of statement, some statements) and fortran/matlab (c) (indexing of arrays starts from 1, naming of the functions). Project rlabplus provides second update to RLaB2 and third release RLaB3 of the environment for 32- and 64-bit linux systems.
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Optimizer_sovkov
Constructing and optimizing general mathematical and physical models
We present the package Optimizer, aimed at constructing and optimizing general mathematical models of phenomena of versatile nature. It is written in the Matlab algorithmic language and is executed in the Matlab environment with partial functionality in Octave. The convenient visual interface and the detailed manuals are provided. The main benefit of the package is its capability to construct models of any level of complexity in a block-by-block manner. Elementary model blocks can be collected in libraries, and we have already written many such library programs. ... -
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slab3d
slab3d is a real-time virtual acoustic environment.
slab3d is a real-time virtual acoustic environment rendering system. It includes two rendering applications, libraries for spatial auditory display and audio signal processing development, and a set of tools for HRTF analysis and visualization. -
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Algorithms Math Models
MATLAB implementations of algorithms
Algorithms_MathModels is a large MATLAB collection of algorithms and solved examples targeted at students and teams preparing for mathematical modeling competitions (national and international contests like MCM/ICM). The repository gathers implementations and case studies across many topics commonly used in contest solutions: optimization (linear, integer, goal and nonlinear programming), heuristic and metaheuristic methods (simulated annealing, genetic algorithms, immune algorithms), neural... -
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PeMSyn
Matlab/Scilab-FEMM based GUI to Assist the Design of Permanent Magnet
Release: PeMSyn 2.4 - 03.Sep.21 Requirements: - Matlab 2018a or later (with Parallel Computing Toolbox ) - Scilab 6.1.0 or later - FEMM 4.2 (21Apr2019 or later) Matlab/Scilab-FEMM based GUI to Assist the Design of Permanent Magnet Machines: - Surface Mounted PMSM: Inner Rotor / Outer Rotor - Inset Mounted PMSM: Inner Rotor / Outer Rotor - Spoke-Type PMSM: Inner Rotor - Coreless Machine - Different Slot types available - Permeance Coefficient Assistant --- No-Load and... -
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DICOV
MATLAB-based Dicom converter and viewer
DICOV (Dicom COnVerter) is a MATLAB-based tool for converting Dicom files into Analyze format with SPM orientation. Also, it supports simple Dicom viewer. As it utilizes some functions in SPM8, SPM8 should be installed and its path should be included to MATLAB path. A 64bit environment with more than 8GB RAM is required for DICOV (MAC OSX is recommended.). Dicom is unified medical image format, but there're some variability across the imaging systems. DICOV is optimized for the Dicom files generated by GE PACS system. -
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Quadrotor
Quadrotor control, path planning and trajectory optimization
This MATLAB-based repository contains implementations of quadrotor control systems, path planning, and trajectory optimization algorithms developed as part of an advanced robotics course at the University of Pennsylvania. It includes PD controllers, path planning via Dijkstra and A* algorithms, and trajectory optimization (minimum snap/acceleration). Run code: change trajectories in file control/runsim.m and run. See quadrotor_dynamics.pdf for dynamic modeling of the quadrotor. See... -
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MolDynSim
TrajLab subproject: Molecular dynamics simulations in MATLAB
...While the authors are aware that many other highly specialized and highly optimized program packages for the same purpose exist (e. g. AMBER, GROMACS, NAMD, etc.), the MATLAB environment offers easy access to manipulating the codes, testing novel algorithms, non-standard force fields and performing all kinds of numerical experiments. To be used mainly in research and teaching! Started early 2010, MolDynSim is still in an early (alpha) stage, and any help in further development is highly appreciated. Developed mainly by B. ... -
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MetaStable
TrajLab subproject: Metastability analysis of molecular conformations
...While the authors are aware that many other highly specialized and highly optimized program packages for the same purpose exist (e. g. AMBER, GROMACS, NAMD, etc.), the MATLAB environment offers easy access to manipulating the codes, testing novel algorithms, non-standard force fields and performing all kinds of numerical experiments. To be used mainly in research and teaching! Started early 2010, MetaStable is still in an early (alpha) stage, and any help in further development is highly appreciated. Developed by B. ... -
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Gene-Environment iNteraction Simulator 2
A tool able to simulate gene-environment and gene-gene interactions.
...The GENS2 tool is able to simulate gene-environment and gene-gene interactions. To make the Simulator more intuitive, the input parameters are expressed as standard epidemiological quantities. GENS2 is written in Python language and takes advantage of operators and modules provided by the simuPOP simulation environment. It can be used through a graphical or a command-line interface. -
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MRiLab
A Numerical MRI Simulation Platform
The MRiLab project is moving to GitHub, the latest version can be obtained from https://leoliuf.github.io/MRiLab/ The MRiLab is a numerical MRI simulation package. It has been developed and optimized to simulate MR signal formation, k-space acquisition and MR image reconstruction. MRiLab provides several dedicated toolboxes to analyze RF pulse, design MR sequence, configure multiple transmitting and receiving coils, investigate magnetic field related properties and evaluate real-time... -
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SoundRuler is a tool for acoustic analysis, graphing and teaching. It interactively recognizes and measures 35 temporal and spectral properties of each sound in a file. It also features several measurement, graphing and didactic modules.
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lpACLib
An Open-Source Library for Low-Power Approximate Computing Modules
The “lpACLib” library contains the VHDL description of accurate and approximate versions of several arithmetic modules (like adders and multiplier of different bit-widths) and accelerators. Moreover, it also provides the corresponding software behavioral models/implementations developed in C and MATLAB to enable quality characterization. Besides our novel designs, it also contains implementations for several state-of-the-art arithmetic modules and their approximate versions. ... -
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SCRalyze
A matlab environment for model-based psychophysiology
SCRalyze is a powerful tool for model-based analysis of psychophysiological signals, using linear convolution models and dynamic causal modelling. A flexible import interface and many utilities make this software a standalone tool. IMPORTANT: As of 04.11.2019, the official code repository for PsPM (formerly SCRalyze) has been moved to https://github.com/bachlab/PsPM . In order to check the latest releases, discussion and bug reports, please refer to our new repository. Although this... -
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DAT_Analyzer
striatal subregional analysis tool for dopamine transporter PET
DAT_Analyzer (DANA) is fully automated tool for analyzing dopamine transporter PET. DANA utilizes coregistration and spatial normalization functions in SPM8 and therefore requires MATLAB 7.1 (or higher) and SPM8 in 64bit environment with more than 8 GB RAM. MAC OSX OS is recommended. It includes various custom templates for conventional MR, DARTEL MR, two type of CT, and ligand specific PET and also includes various types of striatal subregional VOI templates. It supports five types of spatial normalization methods. (This project will be uploaded soon. It's now under construction.) -
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ArchNURBS
NURBS-based elastic and limit analysis of masonry arches in MATLAB
...As in CAD softwares, the geometry of the model is defined by a NURBS representation of the structure. Indeed, the user can upload geometries imported from a CAD environment. Based on such a representation, ArchNURBS performs the elastic isogeometric finite element analysis and the collapse limit analysis of the structure. It is possible to include in the analysis the presence of Fiber-Reinforced Polymers (FRP) extrados and intrados strips. A comprehensive descritpion of ArchNURBS is given in "ArchNURBS: NURBS-Based Tool for the Structural Safety Assessment of Masonry Arches in MATLAB", A. ... -
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PAMGuide
An analysis tool in MATLAB and R for acoustic habitat characterisation
PAMGuide is acoustic analysis software for the characterisation of the acoustic environment from sound recordings. PAMGuide can be used to produce calibrated spectrograms and statistical analyses of sound levels, and is provided in both MATLAB and R. A Tutorial on getting started with PAMGuide can be downloaded here: http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12330/suppinfo PAMGuide was published as supplementary material to the following Open Access journal article: Merchant, N.D., Fristrup, K.M., Johnson, M.P., Tyack, P.L., Witt, M.J., Blondel, P., Parks, S.E. (2015). ... -
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GoIFISH
for the semi-automated analysis of IFISH images
...All results can be exported for further analysis. GoIFISH has been developed in MATLAB, however binaries are provided to run the program outside of the MATLAB environment. Source code is also available for download. To cite this software: "GoIFISH: A system for the quantification of single cell heterogeneity from IFISH images" Trinh A, Rye IH, Almendro V, Helland A, Russness HG, Markowetz F May 2014 -
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MatrixUser
A Multi-functional GUI-based Program for Image Processing and Analysis
...The MatrixUser is a software package which features functions designed and optimized specifically for manipulating multidimensional real or complex data matrix. MatrixUser provides a nice graphical environment for easily performing image analysis tasks including multidimensional image display, matrix (image stack) processing and rendering etc. MatrixUser is a great lightweight tool for users who are working in image processing field under Matlab. -
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MIT SPHERES Simulation (Release)
MIT's spacecraft simulator for control algorithm development
...The simulation is particularly valuable during the early stages of algorithm development and implementation as an aid in accelerating the learning curve for any Guest Scientist for SPHERES. Algorithms may be implemented in C or Embedded MATLAB and executed in the MATLAB simulation environment to verify general desired behavior. With some limitations, the code used in the simulation can be directly transferred to the SPHERES hardware. We are sharing this project with the public to gather more interest for SPHERES Guest Scientists. Feel free to use and contribute to this code base, just don't forget to credit the MIT Space Systems Lab if you distribute any results. -
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FluxModules
Module Computation for Metabolic Networks
Genome Scale Metabolic Networks are complex systems, Modules help to break them down and hence ease understanding and algorithmic complexity. FluxModules is a toolbox with code for module detection and module visualization. -
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Systems Glycobiology
Glycosylation Network Analysis Toolbox (GNAT)
...The second version of this software (GNATv2beta.zip) upgrades the original GNAT program with additional features that are geared towards incorporating glycan-structure experimental data into the simulation environment. For information about GNAT installation and usage, please see the GettingStarted.pdf file enclosed in the package. To cite GNAT: [1] Gang Liu, Apurv Puri and Sriram Neelamegham, Glycosylation Network Analysis Toolbox (GNAT): a MATLAB based environment for systems glycobiology, Bioinformatics 2013 29: 404-406 -
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Octclipse
Octave Eclipse GUI
Octave development environment built upon Eclipse's Dynamic Languages Toolkit (http://www.eclipse.org/dltk/). Distributed as an Update site for Eclipse 3.7 Indigo and Indigo-based package for several platforms. Supports search, autocompletion, launching scripts, interactive console, debug and integrated plotting on Octave versions 3.2.x, 3.4.x and 3.6.x. -
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flNeuronTool
A Fast Light Neuron Tracing and Editor Tool
The flNeuronTool allows users to reconstruct and proofread neuronal morphologies in light microscopy images. The system incorporates automatic tracing and manual editing of neuron reconstruction into a cooperative 3D interactive visualization-assisted environment, which is a powerful tool for analysis of complex neuronal images.
