Showing 181 open source projects for "git:/git.code.sf.net/p/docfetcher/code"

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  • 1

    JCycles

    [frozen] A library for computing cycles in graphs or in Java code.

    [This project is frozen, but has an offspring with more features: https://github.com/jeffhain/jadecy ] JCycles provides treatments to compute cycles, or just strongly connected components, in directed graphs in general, or in classes or packages dependencies graphs parsed from class files (major version <= 51, else does best effort). It uses Tarjan's algorithm for SCCs, and Johnson's for cycles, with continuations instead of recursion, which allows to handle large graphs (<...
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  • 2
    ViennaGrid is a generic mesh handling library that provides the traversal of structured and unstructured grids in arbitrary spatial dimensions, in particular 1d, 2d and 3d. Quantities can be conveniently stored on mesh elements using ViennaData.
    Downloads: 0 This Week
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  • 3

    Algeo#

    A class library to use conformal geometric algebra in C#

    The project is in a very early state and the working parts aren't well tested! Currently it's possible to do basic calculations with multivectors. A lot of operators are overloaded so that you can write your calculations in C# source code almost like you would do in a math software. There is also an extension library providing a control which can visualize multivectors. Visualization is based on OpenGL through the OpenTK library. At the moment I'm working on improvements of the functionality of this library.
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  • 4

    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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  • Deliver trusted data with dbt Icon
    Deliver trusted data with dbt

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  • 5
    Ellipt2d is a finite element program for solving second order, real and complex, two-dimensional elliptic problems with user-defined operators. Because Ellipt2d is written in Python, the code can easily be adapted for specific problems.
    Downloads: 2 This Week
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  • 6

    LQFB-analyser

    A lqfb delegation analyser. A 3d directed weighted multi graph.

    ...It's an application based on the eclipse platform (indigo). To be precise its a directed weighted multi graph browser in 3d. Find out more in the wiki https://sourceforge.net/p/lqfbanalyser/wiki/Home/ . Generated reports https://sourceforge.net/p/lqfbanalyser/wiki/generated%20lqfb%20reports/ .
    Downloads: 0 This Week
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  • 7

    FreDec

    Parallelized FREquency DEComposer algorithm

    ...It is still possible to run FreDec solely on CPU, if no suitable GPU device is available in the system. See the details of the underlying theory in Baluev 2013, MNRAS, V. 436, P. 807 The description of the algorithm itself can be found in arXiv:1309.0100. Please go to the project forum to report any bugs.
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  • 8

    Javafastcomplex

    Javafastcomplex has both mutable and immutable complex numbers

    ...Performance improvement of mutable complex numbers is 10x in the best-case scenario and about 2x in real life complex number code. The package is released under the liberal MIT license.
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  • 9
    NSB entropy and mutual information estimator; applications to the analysis of neural code.
    Downloads: 1 This Week
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    Digital business card + lead capture + contact enrichment

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  • 10

    ATMSP

    ATMSP - A Tiny Mathematical Speed Parser

    A Tiny Mathematical Speed Parser ATMSP is a portable C++ parser for mathematical expressions like "sin(x)+y^2" e.g. These may contain arbitrary numbers of functions, variables and constants. Major design goal was minimalistic size and maximum speed. Tiny 320 code-lines offer a parser plus bytecode-generator, 26 mathematical functions and 17 supported base-types including complex and arbitrary MPFR-multiprecision. Both parser and bytecode may run in threads. The usage of ATMSP is most simple - just include a single header in your own code and go. Reasonably experienced coders may implement other base-types like bool, SSE2, rationals or bigint's with a few changes. ...
    Downloads: 1 This Week
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  • 11
    Matlab VideoUtils

    Matlab VideoUtils

    Matlab Toolbox for reading and writing videos.

    ...This toolbox is designed for Windows x64, Max OS X x64 and Linux x64. Through to use of Ffmpeg, it can reproduce and create videos very fast and also do no require to load the entire video file in memory. In addition the C++ code is already compiled in order to simplify the toolbox installation. In order to stay tuned for updates, you can follow the Matlab VideoUtils on Twitter (@VideoUtils): https://twitter.com/#!/VideoUtils If anyone is interested in collaborate, please contact to me -> https://sourceforge.net/sendmessage.php?touser=3811831
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  • 12
    fvm2

    fvm2

    FVM2 - F Virtual Machine v2

    FVM2 is VM for running machines like Markov algorithms, Turing machine and so on. FVM2 has debugger with step mode and breakpoints. Goal of this project is to help students with studying Theory of computation. FVM2 shows how complex code works within a real machine. Currently the only implemented machine is Markov algorithms.
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  • 13

    NKA

    Nonlinear Krylov acceleration of fixed-point and Newton-like methods

    ...The NKA project provides the canonical implementation of the method for several programming languages. The black-box accelerator is simple to integrate into existing code. Placed in the iteration loop, it observes the sequence of solution updates and replaces them with improved updates using information it has gleaned from previous solution iterates. It was only recently recognized (2011) that NLK is essentially equivalent to Anderson Acceleration for a specific choice of mixing parameter. NLK was independently devised in the late 1980's using a very different approach, and though it leads to the same algebraic method, NLK's organization is somewhat different, and arguably superior. ...
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  • 14
    A C library for big numbers. bign.tar.gz is the set of library files. Expand it wherever you want. bnstart.html is a beginners guide. buserdoc.html is definition and complete instructions. Everything works.
    Downloads: 3 This Week
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  • 15
    The Systems Biology Ontology project (SBO) goal is to develop controlled vocabularies and ontologies tailored specifically for the kinds of problems being faced in Systems Biology, especially in the context of computational modeling. !!!! Important Announcement !!!! We have moved the curation and development of Systems Biology Ontology (SBO) to a git-hub repository https://github.com/EBI-BioModels/SBO. Hence, this SourceForge SBO project has also been retired. Please use the Git-Hub issue tracker https://github.com/EBI-BioModels/SBO/issues to request the addition of new terms.
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  • 16
    MathParser Java - Math Parser library

    MathParser Java - Math Parser library

    Mathematical Parser for Java

    This project gives a mathematical parser for converting a simple string expression into a result which can be managed for using in other calculations, all in Java. Using a couple lines of code, you'll be able to parse complex arithmetic expressions efficiently. This library is powered by Dijkstra's Shuting-yard algorithm. The library has no dependencies with other external libraries. Dependency <dependency> <groupId>com.google.code.mathparser-java</groupId> <artifactId>mathparser-java</artifactId> <version>1.0.0</version> </dependency> Expressions supported (Mar/09/2013) - Arithmetic operations. ...
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  • 17
    Robust Correlation Toolbox

    Robust Correlation Toolbox

    Free Matlab toolbox to compute robust correlations

    The Robust Correlation Toolbox is a free collection of Matlab functions allowing to visualize data in univariate and bivariate space, check assumptions of normality and homoscedasticity and compute Pearson's and Spearman's, percentage bend, and skipped correlations with bootstrapped confidence intervals - see http://www.frontiersin.org/Quantitative_Psychology_and_Measurement/10.3389/fpsyg.2012.00606/full -- code moved to https://github.com/CPernet/robustcorrtool
    Downloads: 0 This Week
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  • 18

    f2what

    Lapack/quadprog QP for VBA/.Net/Java

    F2what is an open source project to translate algorithmic fortran to a variety of languages (java, dotnet and VBA so far). 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.
    Downloads: 2 This Week
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  • 19
    parFE is fully-parallel high-performance finite element code targeted to the modeling of trabecular bones in humans. It employs scalable multigrid solvers for efficient solutions on massively parallel computers.
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  • 20

    DyMMM

    Dynamic Multispecies Metabolic Modeling framework

    ...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. ...
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  • 21

    MCPerm: Monte Carlo SNP permutation

    Monte Carlo permutation method for SNP multiple test correlation

    ...However, it relies on the original single nucleotide polymorphism (SNP) genotypes and phenotypes data to perform a large number of random shuffles, and thus it is computationally intensive, especially for genome-wide association study (GWAS). To improve the calculation speed without changing the size of the TradPerm p-value, we developed a Monte Carlo permutation (MCPerm) method as an efficient alternative to TradPerm. Methods: MCPerm does not need to shuffle the original genotypes and phenotypes data. It uses Monte Carlo method, employs two-step hypergeometric distribution to generate the random number of genotypes (AA, Aa and aa) in cases and controls.
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  • 22
    MuPuPriNT

    MuPuPriNT

    A primality/compositeness tester for different types of numbers.

    ...It is basic, yet full-featured, and offers several different testing methods for each type of number. MuPuPriNT is built on the GNU Multiple-Precision (GMP) integer + rational library, and is available for Windows, OS X, and Linux. Source code is available as well, and can be built on any machine with Qt installed. As of version 2.0, MuPuPriNT is built on the cross-platform Qt application framework. There are currently two versions: MuPuPriNT and MuPuPriNT Extended.
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  • 23
    The fast2armc program translates source code of a counter automata model for FAST(er) tool to the ARMC prolog syntax.
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  • 24
    PTools is a set of useful tools written in Pascal. It includes: scientific calculator, archiver, text editor, remote adminitration and more. It is designed to be portable across operating systems, specially Java-based mobiles, Windows and Unixes.
    Downloads: 3 This Week
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  • 25
    ShiVaSmiles

    ShiVaSmiles

    A slick interface to see various scale analysis algorithms in action.

    ...The main website is built as a wiki gathering info and examples on the various implemented algorithms. The combination of the application and its wiki intend to constitute a nice little pedagogic toolkit for multiscale analysis. Feel free to contribute code or wiki content !
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