Showing 86 open source projects for "linux basic programming"

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  • 1
    A Matlab Toolbox for uncertainty analysis of biochemical networks via semidefinite programming.
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  • 2
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  • 3

    OptimizeSNP

    Selects SNPs and samples with known genotypes for microarray design

    Program apply linear programming to minimize the number of microarrays and hybridization experiments that need to be undertaken in order to cover most of the predicted expressed SNPs.Dependencies:. 1) mampl.exe must be in system PATH 2) CPLEX 12.2 must be installed. cplexamp.exe must be in system PATH mampl.exe can be obtained from any program containing AMPL. I obtained AMPL from trial version of MOSEK at http://www.mosek.com/. CPLEX 12.0 can be obtained from...
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  • 4
    Protein ALignment Optimizer
    Protein ALignment Optimiser (PALO) is a script for the selection and alignment of the best combination of transcripts among orthologous genes. PALO is mainly written in Python, although other programming languages are also implemented (R, Perl...).
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  • 5
    Basic Electronical Medical Management (BEMM) is an application to control medical data of a set of patients. It is built on top of open source technologies, to provide an integration skeleton of mvn, Datanucleus, Spring, Vaadin, Acceleo technologies.
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  • 6
    simple-galib
    This library is a lightweight implementation of genetic algorithm, contains the most popular types of chromosomes and the basic algorithms for selection, elitism, crossing and mutation.
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  • 7
    The SBML ODE Solver is a command-line tool and programming library (ISO/ANSI C) for construction and numerical integration of an ODE system, derived from an SBML based description of a biochemical reaction network. Development has moved to https://github.com/raim/SBML_odeSolver . Please download the latest version from there!
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  • 8
    Acanthocephalan Proboscis Profiler is a tool for detecting acanthocephalan morphotypes.
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  • 9
    GenCart: Genome Cartology in the R Statistical Programming Language
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  • 10
    A repository linking to eight Bioinformatics Resource Centers (BRCs) sponsored by the NIAID. The BRCs are providing web-based resources to scientific community conducting basic and applied research on organisms considered potential agents of bioterrorism
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  • 11
    Genealogy of Life
    Controversial ideas of Williamson, Margulis & others suggest speciation by hybridizing might be more common than originally thought. Taking this concept to the nth degree & assuming that indeed, speciation mostly occurs by hybridizing events, not the accumulation of mutations or genetic drift, here is a catalogueoflife2gedcom converter. It allows the tree of life to be displayed as a human genealogy tree with hybridizing events depicted as "marriages." The idea then is that mutation...
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  • 12
    HZL Beta 2 is the updated version of a software application based on MS-Access, designed to manage and digitize botanical and zoological collections.
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  • 13
    This project shows how to integrate NVIDIA CUDA GPU programming API into ITK (Insight Segmentation and Registration Toolkit) library
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  • 14
    HZL is a computer application based on MS-Access, designed to manage and digitize botanical and zoological collections. Credits and further information about Herbar-Zoorbar Ligero in its website: http://www.gbif.es/hzl/hzl.php
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  • 15
    Batman-Seq: Basic Alignment Tool for MAny Nucleotides. A fast BWT-based short reads mapping tools which uses additional statistical method to model error profile of the sequencing experiment.
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  • 16
    Mac upgraded to OSX, Lepard which do not support os9 anymore. This project is build to help DNA Strider user to get their data out and perform some basic DNA analyze function.
    Downloads: 13 This Week
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  • 17
    EXPR is a software package for the recording and analysis of animal behaviour. Recording is done by pressing particular keyboard keys on the computer. The software then saves the sequence and timing of behaviours. Note that the DOS (1995: https://sourceforge.net/projects/expr/files/expr/fb-port-expr-00-1995/EXPR-binary-DOS-0.0.1995.tar.gz/download) version is currently the only fully functional and is recommended for use. On modern computers, DOS software can run in DOSBOX (https://www.dosbox.com/).
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  • 18
    Java API for implementing any kind of Genetic Algorithm and Genetic Programming applications quickly and easily. Contains a wide range of ready-to-use GA and GP algorithms and operators to be plugged-in or extended. Includes Tutorials and Examples.
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  • 19
    Protein Mass Spectrometry: cprobid is a software for identification peptides from MS/MS spectra. The output of this program is compartable with TransProteomic Pipeline software package (sashimi project).
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  • 20
    Basic implementation of K-nearest neighbour Algorithm and the application of KNN to classify protein sequences as transmembrane beta barrel or non-transmembrane beta barrel on the basis of whole sequence amino acid composition given as input.
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  • 21
    The Systems Biology Research Tool (SBRT) is both an application and an application programming interface (API) intended to facilitate the computational aspects of systems biology.
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  • 22
    The JefNET (Java Evolutionary Framework Network) Proj. consists of three subprojects: JEF, Dna, JXTAJef. Our intent is to provide a distributed genetic programming framework for the Java language, and a network in which classes can spontaneously evolve.
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  • 23
    Sehr Gut Libs (sglibs) is a set of utility libraries for general and scientific programming. It includes stack and string manipulation, CGI I/O, config file parsing, and sequence-processing for molecular biology.
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  • 24
    Genetic programming environment to inference context free grammars base on positive and negative examples of language.
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  • 25
    The Darwin Libraries is the standard collection of functions for "Darwin", an interactive programming environment for bioinformatics (computational biology) developed at ETH Zurich (Swiss Federal Institute of Technology).
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