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Tellurium: An extensible python-based modeling environment for systems and synthetic biology
Choi, Kiri, Medley, J. Kyle, König, Matthias, Stocking, Kaylene, Smith, Lucian, Gu, Stanley, Sauro, Herbert M.
Published in BioSystems (01.09.2018)
Published in BioSystems (01.09.2018)
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Journal Article
PyImageJ: A library for integrating ImageJ and Python
Rueden, Curtis T., Hiner, Mark C., Evans, Edward L., Pinkert, Michael A., Lucas, Alice M., Carpenter, Anne E., Cimini, Beth A., Eliceiri, Kevin W.
Published in Nature methods (01.11.2022)
Published in Nature methods (01.11.2022)
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Journal Article
Python tools for structural tasks in chemistry
Ryzhkov, Fedor V., Ryzhkova, Yuliya E., Elinson, Michail N.
Published in Molecular diversity (01.08.2025)
Published in Molecular diversity (01.08.2025)
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Journal Article
Towards understanding bugs in Python interpreters
Liu, Di, Feng, Yang, Yan, Yanyan, Xu, Baowen
Published in Empirical software engineering : an international journal (01.01.2023)
Published in Empirical software engineering : an international journal (01.01.2023)
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Journal Article
Domain Knowledge Matters: Improving Prompts with Fix Templates for Repairing Python Type Errors
Peng, Yun, Gao, Shuzheng, Gao, Cuiyun, Huo, Yintong, Lyu, Michael R.
Published in Proceedings / International Conference on Software Engineering (14.04.2024)
Published in Proceedings / International Conference on Software Engineering (14.04.2024)
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Conference Proceeding
A Study of Call Graph Construction for JVM-Hosted Languages
Ali, Karim, Lai, Xiaoni, Luo, Zhaoyi, Lhotak, Ondrej, Dolby, Julian, Tip, Frank
Published in IEEE transactions on software engineering (01.12.2021)
Published in IEEE transactions on software engineering (01.12.2021)
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Journal Article
Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R and GenePattern Notebook implementations of CoGAPS
Johnson, Jeanette A. I., Tsang, Ashley P., Mitchell, Jacob T., Zhou, David L., Bowden, Julia, Davis-Marcisak, Emily, Sherman, Thomas, Liefeld, Ted, Loth, Melanie, Goff, Loyal A., Zimmerman, Jacquelyn W., Kinny-Köster, Ben, Jaffee, Elizabeth M., Tamayo, Pablo, Mesirov, Jill P., Reich, Michael, Fertig, Elana J., Stein-O’Brien, Genevieve L.
Published in Nature protocols (01.12.2023)
Published in Nature protocols (01.12.2023)
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Journal Article
SAB: An open-access Python-based integrated platform for fully automated emergent sustainability assessment of biorefineries
Zarafshani, Hanie, Watjanatepin, Ponnapat, Navare, Kranti, Sauve, Giovanna, Van Acker, Karel
Published in The international journal of life cycle assessment (01.04.2024)
Published in The international journal of life cycle assessment (01.04.2024)
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Journal Article
PyRates—A Python framework for rate-based neural simulations
Gast, Richard, Rose, Daniel, Salomon, Christoph, Möller, Harald E., Weiskopf, Nikolaus, Knösche, Thomas R.
Published in PloS one (16.12.2019)
Published in PloS one (16.12.2019)
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Journal Article