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

By J. M. D. L. Rosa-Trevín, A. Quintana, L. D. Cano, A. Zaldívar, I. Foche, J. Gutierrez, J. Gómez-Blanco, J. Burguet-Castell, J. Cuenca-Alba, V. Abrishami and 10 more. Journal of Structural Biology, 2016

532 citations recorded by the source corpus.

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.

Subfields: Materials Chemistry, Structural Biology, Surfaces, Coatings and Films

View Paper: https://www.semanticscholar.org/paper/aedd7f4e69fd06d8a11b293b3182b4b7bd4e239e

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Materials Chemistry

1. Thomas Mulvaney
2. J. Beton
3. Maya Topf
4. Tristan Cragnolini
5. Manaz Kaleel
6. Aaron Sweeney

In Structural Biology

1. Tristan Cragnolini
2. J. Beton
3. Maya Topf
4. Thomas Mulvaney
5. Manaz Kaleel
6. Aaron Sweeney

In Surfaces, Coatings and Films

1. J. Beton
2. Maya Topf
3. Tristan Cragnolini
4. Thomas Mulvaney
5. Manaz Kaleel
6. Aaron Sweeney

Citations in the corpus

• Integrating model simulation tools and cryo‐electron microscopy (2022, methodology): “, CCP-EM,(12) PHENIX,(13) Rosetta,(14) and SCIPION).(15) Below, we describe computational methods that are designed to extract information directly from the map, then continue with methods that combine information from the map and the corresponding atomic model.”