Showing 22 open source projects for "write"

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  • 1
    The Chemistry Development Kit
    The Chemistry Development Kit (CDK) is a scientific, LGPL-ed library for bio- and cheminformatics and computational chemistry written in Java. The main home page of the CDK is now at: http://cdk.github.io
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    Downloads: 40 This Week
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  • 2
    Lipid Reporter

    Lipid Reporter

    Modifies csv files with a range of user defined filters.

    ** Updated for Windows 10** Lipid Reporter takes your plain old Progenesis QI search exports and allows you to manipulate them in a quick, safe, predictable way. Now with better support for Progenesis QI grouped output! Why muddle things up with Excel? Use Lipid Reporter instead. The supplied filters are all about Lipids. Add the category names, reject Ids that our outside of your favourite retention time range and lots more! This program is not produced by Nonlinear Dynamics...
    Downloads: 0 This Week
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  • 3
    Antimony

    Antimony

    Antimony is a human-readable, human-writable model definition language

    Antimony is a human-readable, human-writable model definition language. libAntimony is a library that will read and write Antimony and SBML files and provides an API for other programs to import Antimony models into their own internal formats.
    Downloads: 4 This Week
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  • 4
    libSBOL
    libSBOL provides the core C/C++ interfaces and their implementation for the Synthetic Biology Open Language (SBOL). Version 2.1.1 of libSBOL provides an API to construct SBOL 2.1.0 designs and to read and write SBOL version 2.1.0 XML/RDF files.
    Downloads: 0 This Week
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  • 5
    jlibsedml
    A Java library to facilitate SED-ML support for systems biology applications to read, validate, edit, and write SED-ML documents in compliance with MIASE guidelines. Also contains modules to execute simulation tasks and produce outputs. This project also contains the SED-ED editor application for SED-ML.
    Downloads: 0 This Week
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  • 6
    PDBManip

    PDBManip

    PDBManip is a free program for editing PDB (Protein Data Bank) Files

    ...There is a bunch of free programs on the internet for the same purpose. What discriminate between PDBManip and those programs is that PDBManip uses AngelScript language which is very similar to C/C++ language, to write scripts to do our editing tasks. I know that the text-manipulation script languages such as Awk and Perl are available, and many users, uses these to do their works. However, in developing PDBManip, I have customized scripting language, by adding predefined PDB related variables and functions, in such a way that a user with a very basic knowledge of programming can easily write very eligible scripts, even for very complicated editing and manipulating tasks. ...
    Downloads: 0 This Week
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  • 7

    BioC

    We describe a simple XML format to share text documents and annotation

    A minimalist approach to share text documents and data annotations. Allows a large number of different annotations to be represented. Project files contain: - simple code to hold/read/write data and perform sample processing. - BioC-formatted corpora - BioC tools that work with BioC corpora BioC goals - simplicity - interoperability - broad use - reuse There should be little investment required to learn to use a format or a software module to process that format. We are interested in reuse, and we focus on common NLP tasks that are broadly useful for textmining.
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    Downloads: 6 This Week
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  • 8
    Phanto_maJ

    Phanto_maJ

    build three dimensional structure

    ...PhantomaJ is thus "ready to use" for most users, but advanced users can choose to modify specific parameters such as intersection mode, intensity decrease function or virtual real three dimension. In addition, adding a new "basic form" consiste for advanced users to write two short java file ( one describing the new form geometry and the other transcripting this geometry in java3D world ). PhantomaJ is the indispensable tool for who want to create phantom bank of simply an unique complexe structure very easily.
    Downloads: 0 This Week
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  • 9
    q pipeline manager

    q pipeline manager

    q: integrated platform for pipeline configuration and management

    The q utility is a platform for creating and managing data analysis pipelines. It expands the value of your existing job scheduler - either Grid Engine or TORQUE PBS - through numerous functions that help you organize, submit, monitor, manage and share your informatics work. Data processing pipelines require high-level organization and parallelization of work to optimize resource utilization and decrease the time to results. q (from queue) allows complex job sequences to be efficiently...
    Downloads: 0 This Week
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  • 10

    noise-free-cnv

    program for analyzing and manipulating DNA microarray data

    ...The visualization and the suppression of genomic waves, the comparison of two datasets by subtraction and the simultaneous inspection of LRR and BAF values are amongst the most frequent applications of this software. This program is able to read and write files suitable for PennCNV or raw files containing measured values of any kind.
    Downloads: 3 This Week
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  • 11

    slurp

    IO buffering in parallel environments with large files

    'slurp' and 'glurp' are related utilites that help with buffering of file input and output (IO) in parallel environments with large files. They read and write files using a much larger buffer than typical system and program defaults.
    Downloads: 0 This Week
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  • 12
    Darwin 2: Java Framework for Evolutionary Computation (genetic algorithm, GA). A true framework with out-of-the-box functionality and extensibility of all classes. Interface-based pattern with dependency-injection to configure components.
    Downloads: 0 This Week
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  • 13
    If you manage phylogenetic data, Bio::NEXUS can make your life easier with a library and ready-made tools to manipulate and visualize NEXUS files (see http://www.molevol.org/nexplorer and http://search.cpan.org/dist/Bio-NEXUS/doc/Tutorial.pod).
    Downloads: 0 This Week
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  • 14
    Perl Node Interface
    Perl Node Interface (PNI) is a node based visual programming environment. PNI makes easy to humans to write Perl programs. No Perl skill is required, programs are builded graphically. Perl coders can easily extend it writing new nodes.
    Downloads: 0 This Week
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  • 15
    MASyV (Multi-Agent System Visualization) enables one to write agent-based models/cellular automata, eg. in C, visualize them in real time & capture to movie file with MASyVs GUI & message passing lib. Includes examples: Hello World, ants, viral infection
    Downloads: 0 This Week
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  • 16
    Adjusting PKL-Files derived from MS-experiments. The development of the project has been MOVED TO https://github.com/binfalse/adjustpkl
    Downloads: 0 This Week
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  • 17
    This is a mathematical/informatical/biologocal aproach to System-research. The aim is to write a progrramm that simulates a world with as many mathematical methods as possible at once.
    Downloads: 0 This Week
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  • 18
    The MIPE (Minimal Information for PCR Experiments) format is a XML format that enables genomics researchers to store critical information on PCR experiments. Accompagnying perl scripts are written to read from (dbSTS) or write to a MIPE XML file.
    Downloads: 0 This Week
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  • 19
    A C++ development library designed to make common operations on DNA and protein sequences easy. libGenome provides functionality to read, write, and manipulate sequence and annotation data in several file formats.
    Downloads: 0 This Week
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  • 20
    The project aims to extend the PHP scripting language to enable PHP developers to write bioinformatics applications more rapidly than if they had to start from scratch using \"vanilla php\".
    Downloads: 0 This Week
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  • 21
    Jaybird is java-language based, source & xml & codebyte class inter-converting tool. You can write your Envolvable Code with it; You can make your computer write program itself; You can run program without compiling time; You can manage source as data
    Downloads: 0 This Week
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  • 22
    A web based tool that combines automatic extraction of gene and protein entities with manual curation done by the researchers who read and write the biomedical texts. The interface is loaded in web browser extensions and viewed along with the abstract.
    Downloads: 0 This Week
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