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  1. 4181
    “…We previously published a pKNOT server, which provides a structural database of knotted proteins, analysis tools for detecting and analyzing knotted regions from structures as well as a Java-based 3D graphics viewer for visualizing knotted structures. …”
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    pKNOT v.2: the protein KNOT web server
  2. 4182
    “…CONCLUSIONS: The Vanted add-on FluxMap comprises a comprehensive set of functionalities for visualization and advanced visual exploration of flux distributions in biological networks. It is available as a Java open source tool from http://www.vanted.org/fluxmap.…”
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    FluxMap: A VANTED add-on for the visual exploration of flux distributions in biological networks
  3. 4183
    “…Availability and implementation: 13CFLUX2 is implemented in C++ (ISO/IEC 14882 standard) with Java and Python add-ons to run under Linux/Unix. …”
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    13CFLUX2—high-performance software suite for (13)C-metabolic flux analysis
  4. 4184
    “…The methodology is implemented in Java. Cases within the framework of cardiac rehabilitation processes are analyzed and the calculations are based on 200 patients who underwent different cardiac-rehabilitation processes. …”
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    Automatic Assessment of Socioeconomic Impact on Cardiac Rehabilitation
  5. 4185
    “…Nengo 1.4, which was implemented in Java, was used to create Spaun, the world's largest functional brain model (Eliasmith et al., 2012). …”
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    Nengo: a Python tool for building large-scale functional brain models
  6. 4186
    “…The algorithm is implemented using R packages and Java. AVAILABILITY: The software is freely available from http://www.ucl.ac.uk/medicine/molecular-medicine/publications/microarray-outlier-analysis.…”
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    ZODET: Software for the Identification, Analysis and Visualisation of Outlier Genes in Microarray Expression Data
  7. 4187
    “…Finally, the online service of the EKPD database was implemented in PHP + MySQL + JavaScript.…”
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    EKPD: a hierarchical database of eukaryotic protein kinases and protein phosphatases
  8. 4188
    por Wang, Rongcun, Huang, Rubing, Qu, Binbin
    Publicado 2014
    “…Three case studies on java open source software projects Findbugs, Hibernate, and Spring are conducted to research the characteristics of change propagation. …”
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    Network-Based Analysis of Software Change Propagation
  9. 4189
    “…The database can be downloaded as a stand-alone Java application.…”
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    Syn-Lethality: An Integrative Knowledge Base of Synthetic Lethality towards Discovery of Selective Anticancer Therapies
  10. 4190
    “…The advantage of our approach is that it significantly increases the specificity and sensitivity (both between 80% and 90%) in comparison to other ab initio methods (where they are in the range of 70–75%). WISCOD is written in JAVA and R and is available to download and to run in a local mode on Linux and Windows platforms.…”
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    WISCOD: A Statistical Web-Enabled Tool for the Identification of Significant Protein Coding Regions
  11. 4191
    “…The website was developed using PHP and JavaScript, which are supported by all major browsers; the database was built using MySQL server. …”
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    Kin-Driver: a database of driver mutations in protein kinases
  12. 4192
    “…Availability and implementation: Code in Java and Python along with instructions to download the reads and variants is at http://bioinform.github.io/varsim. …”
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    VarSim: a high-fidelity simulation and validation framework for high-throughput genome sequencing with cancer applications
  13. 4193
    “…Tn-seq Explorer is written in Java as a menu-driven, stand-alone application. It was tested on Windows, Mac OS, and Linux operating systems. …”
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    Tn-Seq Explorer: A Tool for Analysis of High-Throughput Sequencing Data of Transposon Mutant Libraries
  14. 4194
    “…Finally, we discuss visualization challenges posed by Big Data and present the latest innovations with JavaScript graphic libraries.…”
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    Trends in IT Innovation to Build a Next Generation Bioinformatics Solution to Manage and Analyse Biological Big Data Produced by NGS Technologies
  15. 4195
    “…In this study, different from other studies conducted up to the present, ENCOG machine learning framework has been used along with JAVA programming language in order to constitute the ANN. …”
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    Two Different Points of View through Artificial Intelligence and Vector Autoregressive Models for Ex Post and Ex Ante Forecasting
  16. 4196
    “…Together, they improve workflow reproducibility and researcher productivity by enabling popular languages (e.g., Python and R, JavaScript, and C#) and tools (e.g., IPython/Jupyter Notebook and RStudio) to directly define and query networks, and perform network analysis, layouts and renderings. …”
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    CyREST: Turbocharging Cytoscape Access for External Tools via a RESTful API
  17. 4197
    “…The OME Data Model is a metadata specification that supports the image data and metadata recorded in HCS experiments. Bio-Formats is a Java library that reads recorded image data and metadata and includes support for several HCS screening systems. …”
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    Metadata management for high content screening in OMERO
  18. 4198
    “…We also present a built-in Android system using Java for web browsers and mobile devices. RESULTS: Using the accrual software, we re-evaluated the Veteran Affairs Cooperative Studies Program 558— ROBOTICS study. …”
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    Bayesian accrual prediction for interim review of clinical studies: open source R package and smartphone application
  19. 4199
    “…Further, options are provided to facilitate structural superposition using the program structural alignment of multiple proteins (STAMP) and the popular JAVA plug-in (Jmol) is deployed for visualization. …”
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    SMS 2.0: An Updated Database to Study the Structural Plasticity of Short Peptide Fragments in Non-redundant Proteins
  20. 4200
    por Ytow, Nozomi
    Publicado 2016
    “…Even with a reference classification e.g. the GBIF Backbone taxonomy, a comprehensive method to compare classifications in the data aggregation is essential, especially for non-expert users. NEW INFORMATION: A Java application was developed to compare multiple taxonomies graphically using classification data acquired from GBIF’s ChecklistBank via the GBIF Species API. …”
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    Taxonaut: an application software for comparative display of multiple taxonomies with a use case of GBIF Species API
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