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Article

Advances in Xmipp for Cryo–Electron Microscopy: From Xmipp to Scipion

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Faculty of Informatics, Masaryk University, Botanická 68a, 60200 Brno, Czech Republic
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Spanish National Centre for Biotechnology, Spanish National Research Council, Calle Darwin, 3, 28049 Madrid, Spain
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Oxford Protein Informatics Group, Department of Statistics, University of Oxford, Oxford OX1 3LB, UK
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Departament de Física Aplicada, Universitat de Barcelona (UB), Martí i Franquès 1, 08028 Barcelona, Spain
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Departamento de Óptica, Universidad Complutense de Madrid, Plaza de Ciencias 1, 28040 Madrid, Spain
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Institute of Computer Science, Masaryk University, Botanická 68a, 60200 Brno, Czech Republic
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IMPMC-UMR 7590 CNRS, Sorbonne Université, Muséum National d’Histoire Naturelle, 4 Place Jussieu, 75005 Paris, France
*
Author to whom correspondence should be addressed.
Academic Editor: Rui Fausto
Molecules 2021, 26(20), 6224; https://doi.org/10.3390/molecules26206224
Received: 13 September 2021 / Revised: 28 September 2021 / Accepted: 29 September 2021 / Published: 15 October 2021
Xmipp is an open-source software package consisting of multiple programs for processing data originating from electron microscopy and electron tomography, designed and managed by the Biocomputing Unit of the Spanish National Center for Biotechnology, although with contributions from many other developers over the world. During its 25 years of existence, Xmipp underwent multiple changes and updates. While there were many publications related to new programs and functionality added to Xmipp, there is no single publication on the Xmipp as a package since 2013. In this article, we give an overview of the changes and new work since 2013, describe technologies and techniques used during the development, and take a peek at the future of the package. View Full-Text
Keywords: Xmipp; Cryo-EM; Scipion; single-particle analysis Xmipp; Cryo-EM; Scipion; single-particle analysis
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MDPI and ACS Style

Strelak, D.; Jiménez-Moreno, A.; Vilas, J.L.; Ramírez-Aportela, E.; Sánchez-García, R.; Maluenda, D.; Vargas, J.; Herreros, D.; Fernández-Giménez, E.; de Isidro-Gómez, F.P.; Horacek, J.; Myska, D.; Horacek, M.; Conesa, P.; Fonseca-Reyna, Y.C.; Jiménez, J.; Martínez, M.; Harastani, M.; Jonić, S.; Filipovic, J.; Marabini, R.; Carazo, J.M.; Sorzano, C.O.S. Advances in Xmipp for Cryo–Electron Microscopy: From Xmipp to Scipion. Molecules 2021, 26, 6224. https://doi.org/10.3390/molecules26206224

AMA Style

Strelak D, Jiménez-Moreno A, Vilas JL, Ramírez-Aportela E, Sánchez-García R, Maluenda D, Vargas J, Herreros D, Fernández-Giménez E, de Isidro-Gómez FP, Horacek J, Myska D, Horacek M, Conesa P, Fonseca-Reyna YC, Jiménez J, Martínez M, Harastani M, Jonić S, Filipovic J, Marabini R, Carazo JM, Sorzano COS. Advances in Xmipp for Cryo–Electron Microscopy: From Xmipp to Scipion. Molecules. 2021; 26(20):6224. https://doi.org/10.3390/molecules26206224

Chicago/Turabian Style

Strelak, David, Amaya Jiménez-Moreno, José L. Vilas, Erney Ramírez-Aportela, Ruben Sánchez-García, David Maluenda, Javier Vargas, David Herreros, Estrella Fernández-Giménez, Federico P. de Isidro-Gómez, Jan Horacek, David Myska, Martin Horacek, Pablo Conesa, Yunior C. Fonseca-Reyna, Jorge Jiménez, Marta Martínez, Mohamad Harastani, Slavica Jonić, Jiri Filipovic, Roberto Marabini, José M. Carazo, and Carlos O.S. Sorzano. 2021. "Advances in Xmipp for Cryo–Electron Microscopy: From Xmipp to Scipion" Molecules 26, no. 20: 6224. https://doi.org/10.3390/molecules26206224

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