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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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          Sb 2 S 3 -Based Dynamically Tuned Color Filter Array via Genetic Algorithm
                                      
                                            Wei, Xueling,                              Nong, Jie,                              Zhang, Yiyi,                              Ma, Hansi,                              Huang, Rixing,                              Yuan, Zhenkun,                              Zhang, Zhenfu,                              Zhang, Zhenrong,                              Yang, Junbo                              
Published in Nanomaterials (Basel, Switzerland) (24.04.2023)
                   
      
      
                                                  Published in Nanomaterials (Basel, Switzerland) (24.04.2023)
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          Sb[sub.2]S[sub.3]-Based Dynamically Tuned Color Filter Array via Genetic Algorithm
                                      
                                            Wei, Xueling,                              Nong, Jie,                              Zhang, Yiyi,                              Ma, Hansi,                              Huang, Rixing,                              Yuan, Zhenkun,                              Zhang, Zhenfu,                              Zhang, Zhenrong,                              Yang, Junbo                              
Published in Nanomaterials (Basel, Switzerland) (01.04.2023)
                   
      
      
                                                  Published in Nanomaterials (Basel, Switzerland) (01.04.2023)
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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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          Image processing for electron microscopy single-particle analysis using XMIPP
                                      
                                            Scheres, Sjors H W,                              Núñez-Ramírez, Rafael,                              Sorzano, Carlos O S,                              Carazo, José María,                              Marabini, Roberto                              
Published in Nature protocols (01.06.2008)
                   
      
      
                                                  Published in Nature protocols (01.06.2008)
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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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          PyMix - The Python mixture package - a tool for clustering of heterogeneous biological data
                                      
                                            Georgi, Benjamin,                              Costa, Ivan Gesteira,                              Schliep, Alexander                              
Published in BMC bioinformatics (06.01.2010)
                   
      
      
                                                  Published in BMC bioinformatics (06.01.2010)
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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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          Uncovering structural ensembles from single-particle cryo-EM data using cryoDRGN
                                      
                                            Kinman, Laurel F.,                              Powell, Barrett M.,                              Zhong, Ellen D.,                              Berger, Bonnie,                              Davis, Joseph H.                              
Published in Nature protocols (01.02.2023)
                   
      
      
                                                  Published in Nature protocols (01.02.2023)
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          Toward a unified framework for interpreting machine-learning models in neuroimaging
                                      
                                            Kohoutová, Lada,                              Heo, Juyeon,                              Cha, Sungmin,                              Lee, Sungwoo,                              Moon, Taesup,                              Wager, Tor D.,                              Woo, Choong-Wan                              
Published in Nature protocols (01.04.2020)
                   
      
      
                                                  Published in Nature protocols (01.04.2020)
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          ITEP: An integrated toolkit for exploration of microbial pan-genomes
                                      
                                            Benedict, Matthew N,                              Henriksen, James R,                              Metcalf, William W,                              Whitaker, Rachel J,                              Price, Nathan D                              
Published in BMC genomics (03.01.2014)
                   
      
      
                                                  Published in BMC genomics (03.01.2014)
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          Model of temperature, evaporation, and productivity in elevated experimental algae raceways and comparison with commercial raceways
                                      
                                            Khawam, George,                              Waller, Peter,                              Gao, Song,                              Edmundson, Scott,                              Wigmosta, Mark S.,                              Ogden, Kimberly                              
Published in Algal research (Amsterdam) (01.05.2019)
                   
      
      
                                                  Published in Algal research (Amsterdam) (01.05.2019)
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