Supported Applications

Description

an image processing framework to obtain 3D models of macromolecular complexes using 3D EM that allows you to execute workflows combining different software tools, while taking care of formats and conversions.

Usage Notes

SCIPION uses software that depends on CUDA 8.0 for GPU acceleration
SCIPION can use a local directory at /programs/local/scipion/1.0.1/data/tests for test datasets that are too large to include with the software.
SCIPION can download these automatically, but you (or your local sysadmin) will need to create a directory for them.
Please email bugs@sbgrid.org if you have questions or problems.

Primary Citation*

J. M. de l. Rosa-Trevín, A. Quintana, L. d. Cano, A. Zaldívar, I. Foche, J. Gutiérrez, J. Gómez-Blanco, J. Burguet-Castell, J. Cuenca-Alba, V. Abrishami, J. Vargas, J. Otón, G. Sharov, J. L. Vilas, J. Navas, P. Conesa, M. Kazemi, R. Marabini, C. O. S. Sorzano, and J. M. Carazo. 2016. Scipion: A software framework toward integration, reproducibility and validation in 3D electron microscopy. Journal of Structural Biology. 195(1): 93-99.

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  *Full citation information available through

• AppCiter

Citation Note

Please cite the following url when citing Scipion: http://scipion.i2pc.es/

Webinars

Topic: Quo Vaids Scipion
Presenter: Pablo Conesa, Senior Software Developer, National Center for Biotechnology

Host: Shaun Rawson
Recorded on April 21, 2020

Topic: Using Scipion for Stream Image Processing at Cryo-EM Facilities
Presenter: José Miguel de la Rosa Trevin, PhD, Scientific Software Engineer, SciLifeLab, Stockholm University, Sweden

Host: Jason Key
Recorded on June 12, 2018