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  1. 3701
    por Ruzanov, Peter, Jones, Steven JM
    Publicado 2006
    “…CONCLUSION: TreeBuilder3D provides a simple interface and has a small size. Written in Java, TreeBuilder3D is a platform-independent, open source application, which may be useful in analysis of large-scale gene expression data.…”
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    An interactive tool for visualization of relationships between gene expression profiles
  2. 3702
    “…We developed a program to estimate an examinee s ability in order to provide freely available access to a web-based computerized adaptive testing (CAT) program. We used PHP and Java Script as the program languages, PostgresSQL as the database management system on an Apache web server and Linux as the operating system. …”
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    Estimation of an Examinee's Ability in the Web-Based Computerized Adaptive Testing Program IRT-CAT
  3. 3703
    “…Jalview 2 is available in two forms: a lightweight Java applet for use in web applications, and a powerful desktop application that employs web services for sequence alignment, secondary structure prediction and the retrieval of alignments, sequences, annotation and structures from public databases and any DAS 1.53 compliant sequence or annotation server. …”
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    Jalview Version 2—a multiple sequence alignment editor and analysis workbench
  4. 3704
    “…SITEHOUND-web will display the results in HTML pages including an interactive 3D representation of the protein structure and the putative sites using the Jmol java applet. Various downloadable data files are also provided for offline data analysis.…”
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    SITEHOUND-web: a server for ligand binding site identification in protein structures
  5. 3705
    “…Availability: The software is written in the Java language and is available on all major computing platforms for download at http://www.genome.duke.edu/labs/furey/software/fseq. …”
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    F-Seq: a feature density estimator for high-throughput sequence tags
  6. 3706
    “…IGB is an open source, desktop graphical display tool implemented in Java that supports real-time zooming and panning through a genome; layout of genomic features and datasets in moveable, adjustable tiers; incremental or genome-scale data loading from remote web servers or local files; and dynamic manipulation of quantitative data via genome graphs. …”
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    The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets
  7. 3707
    “…RESULTS: We present MochiView, a platform-independent Java software that integrates browsing of genomic sequences, features, and data with DNA motif visualization and analysis in a visually-appealing and user-friendly application. …”
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    MochiView: versatile software for genome browsing and DNA motif analysis
  8. 3708
    “…The resulting alignment is presented via an interactive graphical Java applet and is accompanied by a number of quantitative indicators and downloadable data files. …”
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    ALADYN: a web server for aligning proteins by matching their large-scale motion
  9. 3709
    “…It is implemented in the Java language and runs on MacOSX, Linux and Windows operating systems. …”
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    Assemble: an interactive graphical tool to analyze and build RNA architectures at the 2D and 3D levels
  10. 3710
    “…Summary: MADGene is a software environment comprising a web-based database and a java application. This platform aims at unifying gene identifiers (ids) and performing gene set analysis. …”
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    MADGene: retrieval and processing of gene identifier lists for the analysis of heterogeneous microarray datasets
  11. 3711
    “…GENE LOCATER is a fully customizable program for calculating recombination frequency, written in JAVA. Through an easy-to-use interface, GENE LOCATOR allows users a high degree of flexibility in calculating genetic linkage and displaying linkage group. …”
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    Online Artículo Texto
    Gene Locater: Genetic linkage analysis software using three-point testcross
  12. 3712
    “…Here we present RedeR, an R/Bioconductor package combined with a Java core engine for representing modular networks. …”
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    Online Artículo Texto
    RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations
  13. 3713
    “…XiP allows the construction of workflows by linking components written in both R and Java, the analysis of high-throughput data in grid engine systems and also the development of customized pipelines that can be encapsulated in a package and distributed. …”
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    Online Artículo Texto
    XiP: a computational environment to create, extend and share workflows
  14. 3714
    “…Availability and implementation: The algorithm has been implemented in Java and available at www.sourceforge.net/projects/probeselect. …”
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    ProbeSelect: selecting differentially expressed probes in transcriptional profile data
  15. 3715
    “…CerebralWeb is a light-weight JavaScript plug-in that extends Cytoscape.js to enable fast and interactive visualization of molecular interaction networks stratified based on subcellular localization or other user-supplied annotation. …”
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    CerebralWeb: a Cytoscape.js plug-in to visualize networks stratified by subcellular localization
  16. 3716
    “…Its accuracy is comparable to that of established community-used algorithms, and it is more stable to large translational motions. It is programmed in Java and is compatible with ImageJ.…”
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    moco: Fast Motion Correction for Calcium Imaging
  17. 3717
    “…Availability and implementation: This software is implemented in Java, supported on Windows, Linux and Mac OSX, and freely available at https://github.com/asad/ReactionDecoder Contact: asad@ebi.ac.uk or s9asad@gmail.com…”
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    Reaction Decoder Tool (RDT): extracting features from chemical reactions
  18. 3718
    por Carrere, Sébastien, Gouzy, Jérôme
    Publicado 2017
    “…Source code and installation instructions can be found at https://framagit.org/BBRIC/myGenomeBrowser. myGenomeBrowser is open-source and mainly implemented in Perl, JavaScript, Apache and Docker.…”
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    myGenomeBrowser: building and sharing your own genome browser
  19. 3719
    “…DA+ consists of distributed services and components written in Python and Java, which communicate via messaging and streaming technologies. …”
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    DA+ data acquisition and analysis software at the Swiss Light Source macromolecular crystallography beamlines
  20. 3720
    “…AVAILABILITY AND IMPLEMENTATION: All code (predominantly JavaScript and Python) is freely available from github.com/nextstrain and the web-application is available at nextstrain.org.…”
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    Nextstrain: real-time tracking of pathogen evolution
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