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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
Lecturers: Ari-Matti Saren
Kimmo Mattila
  • Free for Finnish universities, universities of applied sciences and governmental research institutes.
  • Free for others.
All materials, lunches as well as morning and afternoon coffees are free of charge.
Registration by 17.01.2020 12:00
The seats are filled in the registration order. If you got a seat but cannot attend after all, you have to INFORM US ASAP so that we can give your place to somebody in the waiting list. Failing to do so will reduce your chances to be selected for other CSC courses.
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. Registration to the Bioweek 2020 will be opened soon. Please choose the courses you would like to attend.

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

Projects and Collaboration Networks
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