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    Biotite: new tools for a versatile Python bioinformatics library
                                      
                                            Kunzmann, Patrick,                              Müller, Tom David,                              Greil, Maximilian,                              Krumbach, Jan Hendrik,                              Anter, Jacob Marcel,                              Bauer, Daniel,                              Islam, Faisal,                              Hamacher, Kay                              
Published in BMC bioinformatics (05.06.2023)
                   
      
      
                                                  Published in BMC bioinformatics (05.06.2023)
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          SciPy 1.0: fundamental algorithms for scientific computing in Python
                                      
                                            Virtanen, Pauli,                              Gommers, Ralf,                              Oliphant, Travis E.,                              Haberland, Matt,                              Reddy, Tyler,                              Cournapeau, David,                              Burovski, Evgeni,                              Peterson, Pearu,                              Weckesser, Warren,                              Bright, Jonathan,                              van der Walt, Stéfan J.,                              Brett, Matthew,                              Wilson, Joshua,                              Millman, K. Jarrod,                              Mayorov, Nikolay,                              Nelson, Andrew R. J.,                              Jones, Eric,                              Kern, Robert,                              Larson, Eric,                              Carey, C J,                              Polat, İlhan,                              Feng, Yu,                              Moore, Eric W.,                              VanderPlas, Jake,                              Laxalde, Denis,                              Perktold, Josef,                              Cimrman, Robert,                              Henriksen, Ian,                              Quintero, E. A.,                              Harris, Charles R.,                              Archibald, Anne M.,                              Ribeiro, Antônio H.,                              Pedregosa, Fabian,                              van Mulbregt, Paul                              
Published in Nature methods (01.03.2020)
                   
      
      
                                                  Published in Nature methods (01.03.2020)
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          PyNoetic: A modular python framework for no-code development of EEG brain-computer interfaces
                                      
                                            Singh, Gursimran,                              Chharia, Aviral,                              Upadhyay, Rahul,                              Kumar, Vinay,                              Longo, Luca                              
Published in PloS one (06.08.2025)
                   
      
      
                                                  Published in PloS one (06.08.2025)
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          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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          RABiTPy: an open-source Python software for rapid, AI-powered bacterial tracking and analysis
                                      
                                            Sen, Samyabrata,                              Vairagare, Indraneel,                              Gosai, Jitendrapuri,                              Shrivastava, Abhishek                              
Published in BMC bioinformatics (18.05.2025)
                   
      
      
                                                  Published in BMC bioinformatics (18.05.2025)
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          Portable BLAST-like algorithm library and its implementations for command line, Python, and R
                                      
                                            Schmid, Steven,                              Jeevannavar, Aditya,                              Julian, Timothy R.,                              Tamminen, Manu                              
Published in PloS one (30.11.2023)
                   
      
      
                                                  Published in PloS one (30.11.2023)
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          Bioinformatic pipelines in Python with Leaf
                                      
                                            Napolitano, Francesco,                              Mariani-Costantini, Renato,                              Tagliaferri, Roberto                              
Published in BMC bioinformatics (21.06.2013)
                   
      
      
                                                  Published in BMC bioinformatics (21.06.2013)
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          PyUNIxMD: A Python‐based excited state molecular dynamics package
                                      
                                            Lee, In Seong,                              Ha, Jong‐Kwon,                              Han, Daeho,                              Kim, Tae In,                              Moon, Sung Wook,                              Min, Seung Kyu                              
Published in Journal of computational chemistry (15.09.2021)
                   
      
      
                                                  Published in Journal of computational chemistry (15.09.2021)
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