Search Results for "equations" - Page 7
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Showing 373 open source projects for "equations"
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Kinetic Model Builder
GUI for building, simulating and optimizing kinetic models.
...Models can be represented as either states and connecting transitions or interacting allosteric elements (see http://dx.doi.org/10.1085/jgp.201411183). Model parameters can be optimized by fitting model responses to user data. Optional user defined constraint equations for model parameters are parsed with EigenLab (https://github.com/marcel-goldschen-ohm/EigenLab). Convenient simulation and summarization across 2-dimensional sets of stimulus conditions makes constructing stimulus-response curves incredibly simple. For ion channels, this is useful for simulating dose-response or current-voltage curves both with and without a secondary stimulus (e.g. some drug). ... -
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Grin is a set of tools for solving 2D elliptic equations using boundary elements (Green's functions)
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dvi2bitmap is a utility to convert TeX DVI files directly to bitmaps, without going through the complicated (and slow!) route of conversion via PostScript and PNM. The prime motivation for this is to prepare mathematical equations for inclusion in HTML files, but there is a broad range of uses beyond that. dvi2bitmap... * is written in portable C++, and the program acts as a wrapper round the libdvi2bitmap library (both static and shareable), which abstracts DVI and PK files and their contents, Bitmaps, and various other objects supporting these; the library has extensive API documentation, and is intended to be useful for other projects; * can generate XBM, XPM and GIF bitmaps, plus PNG, if you have the libpng library installed; * uses the same kpathsea font-searching library as other TeX programs; * can read DVI files from a pipe; * automatically expands internal bitmaps; * is fast.
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TransportCR
Tool for Numerical Simulations of Cosmic Rays Propagation
TransportCR is the tool for numerical simulation of cosmic rays propagation based on solution of transport equations. -
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Ulambator
boundary element based flow solver for microfluidics
Ulambator solves the depth-averaged Stokes equations using a boundary element method. The combination of both reduces the discretization effort from 3D to 1D. Hence the flow solver is well adapted to free interface flows in shallow geometries. The manual and tutorial codes are still being extended. New functions will be made available. For more user information please check http://lfmi.epfl.ch/ulambator -
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cupSODA
Deterministic simulator of mass-action based models
cupSODA is a simulator of biological systems that exploits the remarkable memory bandwidth and computational capability of GPUs. cupSODA allows to efficiently execute in parallel large numbers of simulations, which are usually required to investigate the emergent dynamics of a given biological system under different conditions. cupSODA works by automatically deriving the system of ordinary differential equations from a reaction-based mechanistic model, defined according to the mass-action kinetics, and then exploiting the numerical integration algorithm, LSODA -
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RTF to LaTeX conversion
rtf2latex2e translates Rich Text Format files into LaTeX
rtf2latex2e is a program that translates RTF (rich text format) files into LaTeX files. It translates text formatting, tables, figures, and equations. The resulting LaTeX files are intended to be quite readable and suitable for editing. -
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n-chinese-remainders
chinese remainder theorem - progressive solving, n-soln, extras
"chinese remainder" solves a system of equations over modulus quickly. crtwo is an improvement to Mathematica's release. crtwo: solves Chinese Remainder a pair at a time, (uses gcd), yet is still fast. Which means crtwo, unlike text book soln, uses an algorithm to solve or fail one mod equation at a time. showing win or fail of each eqn and solving other sawtooth intersections is possible, due to that. -
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ChemStud
android app for engineers and scientists
Carryout unit conversions, perform definite integrals, solve for simultaneous equations and Ordinary Differential Equations from reaction data, solve for electrical engineering circuit problems and optimize linear programming problems -
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TEPG
tutor of linear equations using python
program that solves linear equations and explains the solution and the sample in a pdf file. -
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CFD2D
The incompressible Navier-Stokes equations solver in 2D domains
CFD2D is open source software for Linux for solving the non-dimensionalized incompressible Navier-Stokes equations (NSE) inside an arbitrary two-dimensional domain inscribed in a unit square with Dirichlet and "do-nothing" boundary conditions. The space discretization is based on Finite Element Method (FEM) using an approximately uniform triangular mesh. The two choices of FE spaces are offered, these are of the so called MINI-element and of the Taylor-Hood element. -
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WavePacket
Dynamics of quantum systems, controlled by external fields
WavePacket is a toolkit for numerical simulation of distinguishable particles. It can solve single or coupled time-independent or time-dependent (linear) Schrödinger and Liouville-von Neumann-equations, as well as classical or quantum-classical Liouville equations. External electric fields can be added within the semiclassical dipole approximation, thus WavePacket can be used to simulate modern experiments involving ultrashort light pulses in photo-induced physics or chemistry, including quantum optimal control. With its visualization of quantum dynamics generated 'on the fly', WavePacket is suitable for teaching quantum mechanics as well as for research projects, see also the numerous demonstration examples . ... -
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GMES
GMES is a free Python package for FDTD electromagnetic simulations.
...Its features include simulation in 1D, 2D, and 3D Cartesian coordinates, distributed memory parallelism on any system supporting the MPI standard, portable to any Unix-like system, variuos dispersive ε(ω) models, CPML absorbing boundaries and/or Bloch-periodic boundary conditions, and arbitrary material and source distributions. GMES officially stands for GIST Maxwell’s Equations Solver. -
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tabipb
A treecode-accelerated boundary integral Poisson-Boltzmann solver
...The solver employs a well-conditioned boundary integral formulation for the electrostatic potential and its normal derivative on the molecular surface, which is triangulated and the integral equations are discretized by centroid collocation. The linear system is solved by GMRES iteration and the matrix-vector product is carried out by a Cartesian terraced which reduces the cost from O(N^2) to O(N*logN), where N is the number elements. REFERENCE: W.H. Geng and R. Krasny, A treecode-accelerated boundary integral Poisson-Boltzmann solver for continuum electrostatics of solvated biomolecules, J. ... -
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The Sim.DiffProc package simulates and estimates diffusion processes and has functions for numerical solution of multidimensional stochastic differential equations.
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gladTeX
GladTeX -- embed LaTeX-quality images in HTML
...The maths, embedded in <eq>..</eq> tags, as if within $$..$$ in LaTeX, is fed through latex and replaced by images. Additionally, alt-tags are auto-generated which display the LaTeX-equations when the HTML is viewed e.g. with a text mode browser or by someone with vision loss. The project home has moved, please visit https://humenda.github.io/GladTeX -
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DEVSIM
TCAD Device Simulator
TCAD Device Simulator. DEVSIM is a semiconductor device simulation software, using the finite volume method. This software solves partial differential equations on a mesh. The Python interface allows the user to specify their own equations. -
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FDAC3DMOD
an open source 3D acoustic forward simulation software package
fdac3dmod is an open source 3D acoustic forward simulation software. It solves 3D acoustic velocity-pressure equations via finite-difference time-domain (FDTD) method with perfectly matched layers (PML) used as the boundary condition. -
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MattsMathTools
MathTools is an aid in preparing printed math tests.
Matt's MathTools is a Java application designed as an aid in preparing printed math tests. It is easily embedded in other Java applications or it can be used alone as a single-user desktop app. It includes a scripting environment, numerous demonstration classes and several general utilities. A scripting tutorial is also available. -
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DynaSys
An easy-to-use dynamical systems modeler with great visualizations.
Just type in your difference equations, parameters, and variables and watch your dynamical system evolve. Examine a single path or an entire vector field. Change parameters and watch the effects in real time. Load and save models and data. Enter nullclines and Jacobians identification and classification of equilibria. Auto-generate fast C implementations of your model and fit them to data using Matlab, with optional GPU support. -
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Pyxplot
Graph Plotting Package and Scientific Scripting Language
Pyxplot is a scientific scripting language, graph plotting tool and vector graphics suite. It runs in a command-line environment under Linux, Mac OS X, and other POSIX systems. -
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Muninn
A software package for estimating generalized ensemble weights in Mark
...Muninn is a software package for estimating generalized ensemble weights in Markov chain Monte Carlo (MCMC) simulations. The method is full automated and makes use of the generalized multihistogram (GMH) equations for estimation the density of states [1]. The package is implemented in C++ and has a convenient interface. -
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The CFD General Notation System (CGNS) provides a standard for recording and recovering computer data associated with the numerical solution of fluid dynamics equations. WE HAVE MOVED! Very old (unsupported) stable releases can still be found here, but the new repository is at https://github.com/CGNS
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MathToWeb is a Java-based authoring tool that converts mathematical expressions written in AMS-Latex to presentation MathML. It can be applied to single equations or entire documents containing many hundreds of equations.
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Geometry
(C++) Geometry helper - lets you draw shapes by their equations
Console application with simple interface, which draws or edits an array of geometrical objects (called sketch) and can read sketches from file.
