Search Results for "decomposition" - Page 5
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Showing 138 open source projects for "decomposition"
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StochDecomp
User Manual describing theory behind the package, installation instruc
...Studies on how the noise enters and propagates in biochemical systems provided us with nontrivial insights into the origins of stochasticity, in total however they constitute a patchwork of different theoretical analyses. Here we present a flexible and generally applicable noise decomposition tool, that allows us to calculate contributions of individual reactions to the total variability of a system’s output. With the package it is therefore possible to quantify how the noise enters and propagates in biochemical systems. We also demonstrate and exemplify using the JAK-STAT signalling pathway that it is possible to infer noise contributions resulting from individual reactions directly from experimental data. ... -
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Bugs
SW for HTP analysis of 3D trajectories of microorganisms
Fortran and shell-level programs originally designed for the analysis of quasi-helical trajectories of Toxoplasma gondii through Matrigel media, acquired by 3D microscopy and digitized by Imaris tracking sw, as published in [TBA]. Key sw components include a singular-value-decomposition (SVD) approach to fitting a modified Fourier series to noisy 3D coordinates measured at irregular time intervals (incorporating cross-validation for determining optimum Fourier order); correction for distortions arising from media shift, shrinkage/expansion; analytically-derived instantaneous velocity, curvature and twist/torsion parameters calculated at regularly-sampled spatial intervals along the Fourier-smoothed trajectory; facilities for direct visualization and analysis of the raw and Fourier-fit trajectories, and their derived parameters, via interface with molecular graphics software (eg, PyMol.) -
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Dantzig-Wolfe Solver
An implementation of Dantzig-Wolfe decomposition built upon GLPK
An implementation of Dantzig-Wolfe decomposition built upon the GNU Linear Programming Kit. This is a command line tool for solving properly decomposed linear programs. There are several examples and some documentation to guide the use of this solver. Forked over to GitHub (see link). -
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analyzematrix
Command line tool for reporting details on a given matrix
analyzematrix is a command line tool for learning detailed information about a matrix including its inverse, determinant, eigenvalues, eigenvectors, and singular value decomposition. -
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Library for fingerprinting (decomposition) of chemical compounds. It has several tweaking possibilities and exporting options for data mining toolkits.
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math toolkit
A C++ and Python library for finance, statistics and linear algebra.
...Statistics features include mean, median, variance, standard deviation, covariance, correlation, linear regression, probabilities and random variates of various distributions ... Linear algebra features include matrix arithmetic, inverse, determinant, rank, linear system solution, lu/qr decomposition, svd, eigen values/vectors ... And some auxiliary features like random number generators, equation solution, numerical integration, permutation/combination and gcd/lcm etc. It is aimed to be a convenient and handy toolkit to check out your ideas. -
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PyKMC is a work in progress on-the-fly kinetic Monte Carlo package. It currently allows for automatic defect-decomposition, lattice minimisation, NEB and String saddle point calculations and RAT transition searches - using LAMMPS or LBOMD.
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Ada Lapack
A partial port of Lapack to Ada 2012
...The code is written in the form of a generic package and covers the Lapack routines for - Matrix determinant and inverse on general matrices, - Eigenvalues and eigenvectors of general, real and hermitian symmetric matrices, - Solutions of systems of equations for general, real and hermitian symmetric coefficient matrices, - Singular value decomposition for general matrices Also included is a set of functions (and two procedures) that provide a more familiar Ada style interface to the Lapack routines. See also AdaLAPACK (https://sourceforge.net/projects/adalapack/), a binding to the Fortran LAPACK. -
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Waves Decomposer
sinusoidal decomposition of a sound
Takes audio input from microphone (or internal pc monitor) and display it as sum of sinus waves -
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Generalized Decomposition
Generalized Decomposition for many-objective problems.
Decomposition-based algorithms seem promising for many-objective optimization problems. However, the issue of selecting a set of weighting vectors for more than two objectives is still unresolved and ad-hoc methods are predominantly used. In the present work, a novel concept is introduced which we call generalized decomposition. Generalized decomposition enables the analyst to adapt the generated distribution of Pareto optimal points, according to the preferences of the decision maker. ... -
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Neuroelectrophysiology Toolbox
A Matlab Toolbox for Analysing Electrocorticograms
Neuroelectrophysiology Toolbox is a set of functions for Matlab. It helps analysing electrocorticograms using signal decomposition in frequency bands, finding neural events, calculating triggered windowed averages and more. -
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The DetStoch package offers the user two different methods to compute chemical reactions: Deterministic and Stochastic approaches. It allows the user to play with an intuitive GUI framework and compute the evolution rates of the chemical reactions with the different methods available. The results are displayed in graphical plots of the species concentration over the time. The package is designed to solve any of the following reactions by either one of the two approaches...
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...It supports statistical modeling and data analysis along three main directions: (1) probabilistic graphical models (Bayesian networks, Markov random fields, dependency networks, hybrid random fields); (2) parametric, semiparametric, and nonparametric density estimation (Gaussian models, nonparanormal estimators, Parzen windows, Nadaraya-Watson estimator); (3) generative models for random networks (small-world, scale-free, exponential random graphs, Fiedler random fields), subgraph sampling algorithms (random walk, snowball, etc.), and spectral decomposition.
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f2what
Lapack/quadprog QP for VBA/.Net/Java
...It offers a Fortran77 parser with code transformations, variable disambiguation, and modular output to other programming languages. It also offers already translated versions of Lapack and quadprog to Java, .Net and VBA, to give access to SVD, LU, QR, Cholesky, eigenvalue decomposition, linear system solving and QP optimization in those three languages. -
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open source PLM system - Product Structure management (BOM management) system and Electronic documents management or Entreprise Content Management (ECM) system
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code for SVD
Full source code for singular value decomposition
Full source code for singular value decomposition written by using PHP base on JAMA PHP and papers at http://www.miislita.com/ (Dr. E. Garcia) -
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BADGr
Toolbox for Box Approximation, Decomposition, and Grasping
BADGr, the BoxGrasping toolbox, is a package for Box Approximation, Decomposition, and Grasping. The toolbox was developed in the Computer Vision & Active Perception Lab, at the Royal Institute of Technology, as a participant of the EU research project PACO-PLUS, and published at the project's end in Summer 2010. BADGr provides modules to approximate the shape of a point cloud (possibly from sensor data) by box primitives. -
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GiNaCRA is a C++ library providing data structures and algorithms for Real Algebraic computations. GiNaCRA is based on the efficient C++ library GiNaC including support for symbolic manipulations on polynomials.
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Sutfak is a dictionary program for the aritificial language Lojban (www.lojban.org), written in Perl5/Tk. Features include lookups by Lojban and English words, definition searching by regex, and lujvo decomposition.
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HASEM
Matrix c++ library solving any linear algebra problems
HASEM is a c++ template library, it can be easily configure as a expression template. HASEM solves any linear equation of any kind, it might be homogenous/none homogenous, compute the inverse of square/none square matrices, find LU decomposition, find determinant and rank of matrices, calculate the characteristic polynomial of matrices, find the eigenvalues and eigen vectors and so on. HASEM uses many methods, therefore, you are not limited to just one method, you have the choice to define your desire method as default one. With over 200 member functions and over 40 none member functions HASEM is almost able to solve any linear algebra problems. ... -
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matrixclass
A small and simple cpp template class for manage matrix.
...Support the calculus of the determinant with the Lagrange's algorithm and the Gauss' method. From the revision 11 are avaiable new functions, like crop and cat of matrixes, and the LU decomposition algorithm. -
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zmcomplex library is a C++ library for multi-precision complex-number matrix calculations. It provides several functionalities including singular value decomposition, tensor product calculation, and tracing-out operation.
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ODD is a tool for optimal domain decomposition of atomic structure guided by the given molecular dynamics data.
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Simple order fulfillment system with flexible order decomposition and domain specific programming language for describing decomposition scenarios. Most suitable for Mobile Communications operators who are using Oracle BPEL and AIA technology.
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Hierarchical Approximate Convex Decomposition of 3D Meshes Check out also the new V-HACD https://code.google.com/p/v-hacd/
