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Single particle Cryo-EM image processing

National course open for PhD students, postdocs, researchers and other employees in need of cryo-EM data analyses skills within all Swedish universities.

The course is organized by the SciLifeLab Cryo-EM core facility.



This course provides a theoretical and practical introduction to Cryo-EM image processing. It consists of morning lectures and computational image processing practicals in the afternoon. It focuses mainly on single particle Cryo-EM data analysis and will not cover cell tomography.  The course is aimed to PhD student or researchers in general that already have Cryo-EM data or are planning a Cryo-EM single particle study in the near future. Upon completion of the course, attentive participants will be able to plan Cryo-EM experiments and run most common Cryo-EM image analyses from single particles to 3D classification and refinement.

Important dates 

Application closed

Application deadline: September 1

Acceptance confirmation: September 3

If you have not received any information by September 5, please contact:

Course organizer: Marta Carroni.

Location: Auditorium Air and Fire

Course content

  • Concepts of TEM and image formation
  • EM-sample preparation
  • Concepts of Fourier analysis and CTF
  • Data acquisition: what to consider
  • Cryo-electron microscopy with the Volta phase
  • Particle selection
  • 3D volume refinement
  • Model building
  • Subtomogram averaging

Please note that SciLifeLab training courses do not provide any formal university credits.
The course content is estimated to correspond to 
a certain number of credits, however the estimated credits are just guidelines.
If formal credits are crucial, the student needs to confer with the home department before course application, whether the course is valid for formal credits or not.


Course fee

The course contains a voluntary social program for networking purposes (includes the coffee, lunches and one course dinner with teaching experts). A course fee of 1800 SEK will be invoiced to accepted participants that attend the social program, after completion of the course. NOTE – we cannot invoice individuals.

Entry requirements

Participants must be PhD students, postdocs or PI that are or are going to be directly involved in cryo-EM data processing for structure determination. Previous knowledge of cryo-EM and/or having  an ongoing cryo-EM project is desirable.

Selection criteria

Among the applicants, 30 participants will be selected based on correct entry requirements, motivation to attend the course, as well as gender and geographical balance.