“…The web services of BGDB database were implemented with PHP + MySQL + JavaScript, and provide diverse query functions. …”
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“…It has been tested on the most popular web browsers and requires Java plugin for Jmol visualization. Contact: fmelo@bio.puc.cl…”
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“…The BioPAX Validator is a command-line tool, Java library and online web service for BioPAX that performs >100 classes of consistency checks. …”
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“…Availability: BioPAX-pattern software was developed in Java. Source code and documentation is freely available at http://code.google.com/p/biopax-pattern under Lesser GNU Public License. …”
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“…Issues related to interoperability, scalability, and openness in heterogeneous e-health environments are addressed through the adoption of a FIPA2000 standard compliant agent development platform—the Java Agent Development Environment (JADE). Integrating the IMAIS with light-weight, portable fetal monitor devices allows for continuous long-term monitoring without interfering with a patient’s everyday activities and without restricting her mobility. …”
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“…This tool is coded in JavaScript and has been made available for free in a web browser at http://www.definetherain.org.uk. …”
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“…Availability and implementation: Java executable available for download at http://www.sourceforge.net/p/mitsu-motif/, supported on Linux/OS X. …”
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“…The new MMFF functionality can be accessed through a C++/C#/Python/Java application programming interface (API) developed along the lines of the one already available for UFF in the RDKit. …”
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“…Availability and implementation: MAGI relies on the Node.js JavaScript framework, along with NVIDIA CUDA C, PHP: Hypertext Preprocessor (PHP), Perl and R. …”
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“…Here, EF is demonstrated in a Java plugin, “Ellipsoid Factor” for ImageJ, distributed in the BoneJ plugin collection. …”
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“…We present here “Just Another Tool for Online Studies” (JATOS): an open source, cross-platform web application with a graphical user interface (GUI) that greatly simplifies setting up and communicating with a web server to host online studies that are written in JavaScript. JATOS is easy to install in all three major platforms (Microsoft Windows, Mac OS X, and Linux), and seamlessly pairs with a database for secure data storage. …”
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“…This software is written in Java and can be used as a standalone executable or web service. …”
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“…The code for the associated JavaScript library is available at https://github.com/DessimozLab/phylo-io under an MIT open source license.…”
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“…RESULTS: We present the Java-based framework STON (SBGN TO Neo4j). STON imports and translates metabolic, signalling and gene regulatory pathways represented in the Systems Biology Graphical Notation into a graph-oriented format compatible with the Neo4j graph database. …”
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“…This is achieved by developing a code based on the Java language, which converts the typical four-dimensional structure (spatial and temporal dependency) of data results in the Keyhole Markup Language (KML) format. …”
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“…This software is designed to run on a Java EE application server and store data in a relational database.…”
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“…The front-end interface now uses the force-directed RNA applet for secondary structure visualization and other JavaScript-based views of bar graphs and annotations. …”
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“…IcyTree is written entirely in client-side JavaScript (no plugin required) and, once loaded, does not require network access to run. …”
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“…To overcome these problems, we present the “biological object notation” (BON) format, a new way to exchange and parse nearly all biological data sets more efficiently and with less error than other currently available formats. Based on JavaScript Object Notation (JSON), BON simplifies parsing by clearly separating the biological data from its metadata and reduces complexity compared to XML based formats. …”
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“…To allow the reader to change and adapt the algorithms or to play with different inputs, we provide an open-source web interface to JavaScript implementations and visualizations of each algorithm. …”
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