Stockholm university
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Stefan FleischmannSystems administrator

About me

Working at SciLifeLab at the Cryo-EM Infrastructure Unit and Molecular Biophysics groups.

Taking care of

  • Ceph storage cluster
  • GPU computer cluster (Slurm) and Cryo-EM & MD software installations
  • Cryo-EM microscope network, storage and compute infrastructure
  • Kubernetes cluster
  • LDAP, MAAS, virtual machines and containers (KVM, LXC/LXD), Salt, Ansible, etc.
  • Workstations
  • other hardware, basically anything that can run GNU/Linux ;-)

Research

Research group: Erik Lindahl

Publications

A selection from Stockholm University publication database

  • Using Scipion for stream image processing at Cryo-EM facilities

    2018. J. Gómez-Blanco (et al.). Journal of Structural Biology 204 (3), 457-463

    Article

    Three dimensional electron microscopy is becoming a very data-intensive field in which vast amounts of experimental images are acquired at high speed. To manage such large-scale projects, we had previously developed a modular workflow system called Scipion (de la Rosa-Trevfn et al., 2016). We present here a major extension of Scipion that allows processing of EM images while the data is being acquired. This approach helps to detect problems at early stages, saves computing time and provides users with a detailed evaluation of the data quality before the acquisition is finished. At present, Scipion has been deployed and is in production mode in seven Cryo-EM facilities throughout the world.

    Read more about Using Scipion for stream image processing at Cryo-EM facilities

Show all publications by Stefan Fleischmann at Stockholm University

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