Instruct – I2PC- FEI: Facility-based Image Processing for Electron Microscopy. Madrid, June 27 -29, 2018

Date: 27-Jun-2018 11:00 CEST to 29-Jun-2018 13:00 CEST

Contact: Blanca Elena Benitez Silva


Overall aims and course outline

I2PC is organising its first Cryo-EM Scipion course for Facilities. Scipion team and collaborators have been working in the last years in what we call streaming processing. We understand the importance of having feedback during acquisition and this is precisely what will be covered in this course. From basic processing like movie alignment and ctf estimation on the fly to automatic picking an extraction. Scipion is equipped with several consensus protocols that might help in your automated pipeline to screen and select the best micrograph, CTFs or particles. All with the benefit of Scipion flexibility and ”mix and match” capabilities. Scipion is also able to gather all the processing information and present it in a HTML report that could be served over the web and automatically refreshed. Additionally, scipion API allows the integration with your LIMS system. Currently released Scipion 1.2 goes in streaming all the way to particle extraction, and during the course we will present current work in 2D classification and initial volume, in collaboration with Xmipp team.

The topic of general pipelines for Single Particle Analysis with Scipion will also be covered, as it will be Scipion usage on the cloud (Note: all practical work will be performed on Amazon cloud, and attendees are required to bring their own personal computer to access the cloud via a web browser)

Venue: National Center for Biotechnology (CNB), Madrid, Spain Madrid, June 27 – 29, 2018


Lead contact: Carlos Oscar Sorzano Sánchez email:

Administrative Contact: Blanca Benitez email:

Key dates:

01 – 30 April, 2018: Submission of the course application

01 – 30 April, 2018: Submission of the accommodation grants application

01 – 15 May, 2018: Communication of awarded applications (course and grants)

May 15  – June 15: Payment due

More information on the course and registration here.

Madrid, Spain

Instruct – I2PC- FEI: Facility-based Image Processing for Electron Microscopy. Madrid, June 27 -29, 2018