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MetPy: A Meteorological Python Library for Data Analysis and Visualization

by May, Ryan M., Goebbert, Kevin H., Thielen, Jonathan E., Leeman, John R., Camron, M. Drew, Bruick, Zachary, Bruning, Eric C., Manser, Russell P., Arms, Sean C., Marsh, Patrick T.
Published in Bulletin of the American Meteorological Society (01.10.2022)

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Python: An Ecosystem for Scientific Computing

by Perez, Fernando, Granger, Brian E., Hunter, John D.
Published in Computing in science & engineering (01.03.2011)

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ETE: a python Environment for Tree Exploration

by Huerta-Cepas, Jaime, Dopazo, Joaquín, Gabaldón, Toni
Published in BMC bioinformatics (13.01.2010)

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PyNoetic: A modular python framework for no-code development of EEG brain-computer interfaces

by Singh, Gursimran, Chharia, Aviral, Upadhyay, Rahul, Kumar, Vinay, Longo, Luca
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

by 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)

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A Python Clustering Analysis Protocol of Genes Expression Data Sets

by Agapito, Giuseppe, Milano, Marianna, Cannataro, Mario
Published in Genes (12.10.2022)

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Python for chemistry : an introduction to python algorithms, simulations, and programing for chemistry

by Kanagasabapathy, M.
Year of Publication 2023

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Portable BLAST-like algorithm library and its implementations for command line, Python, and R

by Schmid, Steven, Jeevannavar, Aditya, Julian, Timothy R., Tamminen, Manu
Published in PloS one (30.11.2023)

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PyMix - The Python mixture package - a tool for clustering of heterogeneous biological data

by Georgi, Benjamin, Costa, Ivan Gesteira, Schliep, Alexander
Published in BMC bioinformatics (06.01.2010)

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ViSAPy: A Python tool for biophysics-based generation of virtual spiking activity for evaluation of spike-sorting algorithms

by Hagen, Espen, Ness, Torbjørn V., Khosrowshahi, Amir, Sørensen, Christina, Fyhn, Marianne, Hafting, Torkel, Franke, Felix, Einevoll, Gaute T.
Published in Journal of neuroscience methods (30.04.2015)

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Introducing GPU Acceleration into the Python-Based Simulations of Chemistry Framework

by Li, Rui, Sun, Qiming, Zhang, Xing, Chan, Garnet Kin-Lic
Published in The journal of physical chemistry. A, Molecules, spectroscopy, kinetics, environment, & general theory (06.02.2025)

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Bioinformatic pipelines in Python with Leaf

by Napolitano, Francesco, Mariani-Costantini, Renato, Tagliaferri, Roberto
Published in BMC bioinformatics (21.06.2013)

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Core Imaging Library - Part I: a versatile Python framework for tomographic imaging

by Jørgensen, J. S., Ametova, E., Burca, G., Fardell, G., Papoutsellis, E., Pasca, E., Thielemans, K., Turner, M., Warr, R., Lionheart, W. R. B., Withers, P. J.
Published in Philosophical transactions of the Royal Society of London. Series A: Mathematical, physical, and engineering sciences (23.08.2021)

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Artificial Intelligence with Python Cookbook - Proven Recipes for Applying AI Algorithms and Deep Learning Techniques Using TensorFlow 2.x and PyTorch 1.6

by Kumar, Ritesh, Auffarth, Ben
Year of Publication 2020

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Bioinformatics algorithms : design and implementation in Python

by Rocha, Miguel P., Ferreira, Pedro G.
Year of Publication 2018

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Image processing for electron microscopy single-particle analysis using XMIPP

by Scheres, Sjors H W, Núñez-Ramírez, Rafael, Sorzano, Carlos O S, Carazo, José María, Marabini, Roberto
Published in Nature protocols (01.06.2008)

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PyBibX – a Python library for bibliometric and scientometric analysis powered with artificial intelligence tools

by Pereira, Valdecy, Basilio, Marcio Pereira, Santos, Carlos Henrique Tarjano
Published in Data technologies and applications (11.04.2025)

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SPOTting Model Parameters Using a Ready-Made Python Package

by Houska, Tobias, Kraft, Philipp, Chamorro-Chavez, Alejandro, Breuer, Lutz
Published in PloS one (17.12.2015)

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PyFLEXTRKR: a flexible feature tracking Python software for convective cloud analysis

by Feng, Zhe, Hardin, Joseph, Barnes, Hannah C., Li, Jianfeng, Leung, L. Ruby, Varble, Adam, Zhang, Zhixiao
Published in Geoscientific Model Development (23.05.2023)

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Innovative UAV LiDAR Generated Point-Cloud Processing Algorithm in Python for Unsupervised Detection and Analysis of Agricultural Field-Plots

by Polák, Michal, Miřijovský, Jakub, Hernándiz, Alba E., Špíšek, Zdeněk, Koprna, Radoslav, Humplík, Jan F.
Published in Remote sensing (Basel, Switzerland) (10.08.2021)

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