Scipion: A software framework toward integration, reproducibility and validation in 3D electron microscopy

In the past few years, 3D electron microscopy (3DEM) has undergone a revolution in instrumentation and methodology. One of the central players in this wide-reaching change is the continuous development of image processing software. Here we present Scipion, a software framework for integrating severa...

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Veröffentlicht in:	Journal of structural biology 2016-07, Vol.195 (1), p.93-99
Hauptverfasser:	de la Rosa-Trevín, J.M., Quintana, A., del Cano, L., Zaldívar, A., Foche, I., Gutiérrez, J., Gómez-Blanco, J., Burguet-Castell, J., Cuenca-Alba, J., Abrishami, V., Vargas, J., Otón, J., Sharov, G., Vilas, J.L., Navas, J., Conesa, P., Kazemi, M., Marabini, R., Sorzano, C.O.S., Carazo, J.M.
Format:	Artikel
Sprache:	eng
Schlagworte:	Algorithms Biochemistry, Molecular Biology Electron microscopy Image processing Image Processing, Computer-Assisted - methods Imaging, Three-Dimensional - instrumentation Imaging, Three-Dimensional - methods Life Sciences Microscopy, Electron - methods Reproducibility Reproducibility of Results Single particle analysis Software package Workflow Workflows
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Zusammenfassung:	In the past few years, 3D electron microscopy (3DEM) has undergone a revolution in instrumentation and methodology. One of the central players in this wide-reaching change is the continuous development of image processing software. Here we present Scipion, a software framework for integrating several 3DEM software packages through a workflow-based approach. Scipion allows the execution of reusable, standardized, traceable and reproducible image-processing protocols. These protocols incorporate tools from different programs while providing full interoperability among them. Scipion is an open-source project that can be downloaded from http://scipion.cnb.csic.es.
ISSN:	1047-8477 1095-8657
DOI:	10.1016/j.jsb.2016.04.010