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

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.·2016·Journal of Structural Biology
DOI 10.1016/j.jsb.2016.04.010
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Abstract

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.

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Cited by

Metadata

Authors
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.
Venue
Journal of Structural Biology
Publisher
Elsevier BV
Published
2016-07
Volume
195
Issue
1
Pages
93-99
ISSN
1047-8477 (ISSN-L)
DOI
10.1016/j.jsb.2016.04.010
OpenAlex
W2340685884
Cited by
589
References
2
FWCI
23.00
Type
journal article
Language
en
Open access
closed
Licence
www.elsevier.com/tdm/userlicense/1.0/ (tdm)
Funders
  • MINECO (AIC-A-2011-0638, BFU2013-41249-P, BIO2013-44647-R)
  • Comunidad de Madrid (S2010/BMD-2305)
  • European Union
  • Instruct
  • ESFRI

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