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    Bridging Python to Silicon: The SODA Toolchain
                                      
                                            Agostini, Nicolas Bohm,                              Curzel, Serena,                              Zhang, Jeff Jun,                              Limaye, Ankur,                              Tan, Cheng,                              Amatya, Vinay,                              Minutoli, Marco,                              Castellana, Vito Giovanni,                              Manzano, Joseph,                              Brooks, David,                              Wei, Gu-Yeon,                              Tumeo, Antonino                              
Published in IEEE MICRO (01.09.2022)
                   
      
      
                                                  Published in IEEE MICRO (01.09.2022)
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          PyAGH: a python package to fast construct kinship matrices based on different levels of omic data
                                      
                                            Zhao, Wei,                              Qadri, Qamar Raza,                              Zhang, Zhenyang,                              Wang, Zhen,                              Pan, Yuchun,                              Wang, Qishan,                              Zhang, Zhe                              
Published in BMC bioinformatics (18.04.2023)
                   
      
      
                                                  Published in BMC bioinformatics (18.04.2023)
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          Pickaxe: a Python library for the prediction of novel metabolic reactions
                                      
                                            Shebek, Kevin M.,                              Strutz, Jonathan,                              Broadbelt, Linda J.,                              Tyo, Keith E. J.                              
Published in BMC bioinformatics (22.03.2023)
                   
      
      
                                                  Published in BMC bioinformatics (22.03.2023)
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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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          New Python-based methods for data processing
                                      
                                            Sauter, Nicholas K.,                              Hattne, Johan,                              Grosse-Kunstleve, Ralf W.,                              Echols, Nathaniel                              
Published in Acta crystallographica. Section D, Biological crystallography. (01.07.2013)
                   
      
      
                                                  Published in Acta crystallographica. Section D, Biological crystallography. (01.07.2013)
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          PyMS: a Python toolkit for processing of gas chromatography-mass spectrometry (GC-MS) data. Application and comparative study of selected tools
                                      
                                            O'Callaghan, Sean,                              De Souza, David P,                              Isaac, Andrew,                              Wang, Qiao,                              Hodkinson, Luke,                              Olshansky, Moshe,                              Erwin, Tim,                              Appelbe, Bill,                              Tull, Dedreia L,                              Roessner, Ute,                              Bacic, Antony,                              McConville, Malcolm J,                              Likić, Vladimir A                              
Published in BMC bioinformatics (30.05.2012)
                   
      
      
                                                  Published in BMC bioinformatics (30.05.2012)
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          Visual dynamics: a WEB application for molecular dynamics simulation using GROMACS
                                      
                                            Vieira, Ivo Henrique Provensi,                              Botelho, Eduardo Buganemi,                              de Souza Gomes, Thales Junior,                              Kist, Roger,                              Caceres, Rafael Andrade,                              Zanchi, Fernando Berton                              
Published in BMC bioinformatics (22.03.2023)
                   
      
      
                                                  Published in BMC bioinformatics (22.03.2023)
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          PHENIX: a comprehensive Python-based system for macromolecular structure solution
                                      
                                            Adams, Paul D.,                              Afonine, Pavel V.,                              Bunkóczi, Gábor,                              Chen, Vincent B.,                              Davis, Ian W.,                              Echols, Nathaniel,                              Headd, Jeffrey J.,                              Hung, Li-Wei,                              Kapral, Gary J.,                              Grosse-Kunstleve, Ralf W.,                              McCoy, Airlie J.,                              Moriarty, Nigel W.,                              Oeffner, Robert,                              Read, Randy J.,                              Richardson, David C.,                              Richardson, Jane S.,                              Terwilliger, Thomas C.,                              Zwart, Peter H.                              
Published in Acta crystallographica. Section D, Biological crystallography. (01.02.2010)
                   
      
      
                                                  Published in Acta crystallographica. Section D, Biological crystallography. (01.02.2010)
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          iFeature: a Python package and web server for features extraction and selection from protein and peptide sequences
                                      
                                            Chen, Zhen,                              Zhao, Pei,                              Li, Fuyi,                              Leier, André,                              Marquez-Lago, Tatiana T,                              Wang, Yanan,                              Webb, Geoffrey I,                              Smith, A Ian,                              Daly, Roger J,                              Chou, Kuo-Chen,                              Song, Jiangning                              
Published in Bioinformatics (15.07.2018)
                   
      
      
                                                  Published in Bioinformatics (15.07.2018)
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          reciprocalspaceship: a Python library for crystallographic data analysis
                                      
                                            Greisman, Jack B.,                              Dalton, Kevin M.,                              Hekstra, Doeke R.                              
Published in Journal of applied crystallography (01.10.2021)
                   
      
      
                                                  Published in Journal of applied crystallography (01.10.2021)
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