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41“…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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42por Danis, Daniel, Jacobsen, Julius O. B., Wagner, Alex H., Groza, Tudor, Beckwith, Martha A., Rekerle, Lauren, Carmody, Leigh C., Reese, Justin, Hegde, Harshad, Ladewig, Markus S., Seitz, Berthold, Munoz-Torres, Monica, Harris, Nomi L., Rambla, Jordi, Baudis, Michael, Mungall, Christopher J., Haendel, Melissa A., Robinson, Peter N.“…We present phenopacket-tools, an open-source Java library and command-line application for construction, conversion, and validation of phenopackets. …”
Publicado 2023
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43por Khushi, Matloob, Edwards, Georgina, de Marcos, Diego Alonso, Carpenter, Jane E, Graham, J Dinny, Clarke, Christine L“…RESULTS: We have developed two Java based open source tools: Snapshot Creator and NDPI-Splitter. …”
Publicado 2013
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44por Adams, Richard, Clark, Allan, Yamaguchi, Azusa, Hanlon, Neil, Tsorman, Nikos, Ali, Shakir, Lebedeva, Galina, Goltsov, Alexey, Sorokin, Anatoly, Akman, Ozgur E., Troein, Carl, Millar, Andrew J., Goryanin, Igor, Gilmore, Stephen“…We have developed a software suite, the Systems Biology Software Infrastructure (SBSI), to facilitate the parameter-fitting process. …”
Publicado 2013
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45BCI2000Web and WebFM: Browser-Based Tools for Brain Computer Interfaces and Functional Brain Mapping“…Enabling a powerful BCI suite to communicate with today's most technologically progressive software empowers a new cohort of developers to engage with BCI technology, and could serve as a platform for internet-enabled BCIs.…”
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46“…The software is written in Java and runs as a collection of plugins for the ImageJ software.…”
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47por Zakrzewski, Martha, Proietti, Carla, Ellis, Jonathan J, Hasan, Shihab, Brion, Marie-Jo, Berger, Bernard, Krause, Lutz“…Calypso is an easy-to-use online software suite that allows non-expert users to mine, interpret and compare taxonomic information from metagenomic or 16S rDNA datasets. …”
Publicado 2017
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48por Boyle, Thomas J, Bao, Zhirong, Murray, John I, Araya, Carlos L, Waterston, Robert H“…CONCLUSION: By pairing a fast lineaging program written in C with a user interface program written in Java we have produced a powerful software suite for exploring embryonic development.…”
Publicado 2006
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49por Chirico, Nicola, Sangion, Alessandro, Gramatica, Paola, Bertato, Linda, Casartelli, Ilaria, Papa, Ester“…This software, which is based on the concept of the QSARINS‐chem module embedded in the QSARINS software, has been fully redesigned and redeveloped in the Java™ language. In addition to a selection of models included in the old module, the new software predicts biotransformation rates and aquatic toxicities of pharmaceuticals and personal care products in multiple organisms, and offers a suite of tools for the analysis of predictions. …”
Publicado 2021
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50“…This paper documents the design, integration and use of the resulting monitoring suite for the LHC beam-based feedback systems. The set-up comprises a FESA-based (framework for real-time systems developed at CERN) real-time server and a JavaFX-based graphical interface integrated into CERNs operational software infrastructure. …”
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51por Neshich, Goran, Borro, Luiz C., Higa, Roberto H., Kuser, Paula R., Yamagishi, Michel E. B., Franco, Eduardo H., Krauchenco, Joao N., Fileto, Renato, Ribeiro, André A., Bezerra, George B. P., Velludo, Thiago M., Jimenez, Tomás S., Furukawa, Noboru, Teshima, Hirofumi, Kitajima, Koji, Bava, Abdulla, Sarai, Akinori, Togawa, Roberto C., Mancini, Adauto L.“…Diamond STING is a new version of the STING suite of programs for a comprehensive analysis of a relationship between protein sequence, structure, function and stability. …”
Publicado 2005
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52por Beltrame, Luca, Calura, Enrica, Popovici, Razvan R., Rizzetto, Lisa, Guedez, Damariz Rivero, Donato, Michele, Romualdi, Chiara, Draghici, Sorin, Cavalieri, Duccio“…They are implemented in Java and supported on MS Windows, Linux and OS X. …”
Publicado 2011
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53“…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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54por Enache, Oana M, Lahr, David L, Natoli, Ted E, Litichevskiy, Lev, Wadden, David, Flynn, Corey, Gould, Joshua, Asiedu, Jacob K, Narayan, Rajiv, Subramanian, Aravind“…AVAILABILITY AND IMPLEMENTATION: Software packages (available in Python, R, Matlab and Java) are freely available at https://github.com/cmap. …”
Publicado 2019
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55por Panchiwala, Hemil, Shah, Shalin, Planatscher, Hannes, Zakharchuk, Mykola, König, Matthias, Dräger, Andreas“…The Systems Biology Simulation Core Library (SBSCL) provides interpreters and solvers for these standards as a versatile open-source API in Java(TM). The library simulates even complex bio-models and supports deterministic Ordinary Differential Equations; Stochastic Differential Equations; constraint-based analyses; recent SBML and SED-ML versions; exchange of results, and visualization of in silico experiments; open modeling exchange formats (COMBINE archives); hierarchically structured models; and compatibility with standard testing systems, including the Systems Biology Test Suite and published models from the BioModels and BiGG databases. …”
Publicado 2021
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56“…REDHORSE is portable, platform independent Java based utility that provides efficient analysis of genetic crosses based on Next-generation sequencing data. …”
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57“…However, leveraging GraphQL for data retrieval can be challenging, time-consuming, and repetitive, requiring familiarity with the GraphQL query language and processing outputs in nested JSON (JavaScript Object Notation) format into tidy data tables. …”
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58“…The system further allows users to integrate local command line tools residing on their own computers through a client-side Java applet.…”
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59por Potter, Simon C, Luciani, Aurélien, Eddy, Sean R, Park, Youngmi, Lopez, Rodrigo, Finn, Robert D“…Furthermore, we have refactored our JavaScript visualization library to provide standalone components for different result representations. …”
Publicado 2018
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60“…The proposed method has been implemented in Java, openjdk version “11.0.11”; and for the analysis of the tested RGB images, Python 3.6 was used. …”
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