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Bioweek: Using Modern HPC Environment Efficiently
Date: 03.02.2020 9:00 - 03.02.2020 17:00
Location details: The event is organised at the CSC Training Facilities located in the premises of CSC at Keilaranta 14, Espoo, Finland. The best way to reach us is by public transportation; more detailed travel tips are available.
Language: english-language
lecturers: Ari-Matti Saren
Kimmo Mattila
  • free-price-finnish-academics.
  • free-price-others.
All materials, lunches as well as morning and afternoon coffees are free of charge.

If you wish to be added to the waiting list please contact The seats are filled in the registration order. If you have registered to this course and you are not able to attend, please cancel your registration in advance by sending an e-mail to
Additional Information
This course is part of the PRACE Training activity. Please visit the PRACE Training portal for further information about the course. For content please contact, for practicalities


Using a modern HPC environment efficiently requires not only a good understanding of your scientific problem, but also some familiarity with the technical aspects of the system. On this course we will take a look at some of the most essential ones: Using modern storage services, running jobs through a batch job system and some solutions for getting your analysis environment running on a HPC platform.

This course is part of the Bioweek 2020. You can participate in ALL or only SELECTED Bioweek's courses. We have planned the Bioweek 2020 so that we are building on top of the previous knowledge. For example, the last course (basics of RNA-seq data analysis) has command line, R/RStudio and CSC services usage as prerequisites.

Bioweek 2020:
3.2.2020 Using modern HPC environment efficiently
4.-5.2.2020 Data analysis with R
6.-7.2020 Introduction to RNA-seq data analysis


Learning outcomes

After the course, participants:

  • will have basic skills in using object storage
  • can use object storage services as part of their analysis workflows
  • can run batch jobs using Slurm
  • will have basic skills in using Singularity containers in HPC environment


The participants are required to have basic skills/knowledge in:

  •  Command line usage / Linux basics
Course materials