RNA-seq data analysis

Important dates

  • Application open: March 18, 2019
  • Application deadline: April 24, 2019

Responsible teachers

Johan Reimegård, Paulo Czarnewski, Roy Francis

Contact information for questions regarding the course

Johan Reimegård (johan.reimegard@scilifelab.se)

Course fee

A workshop fee* of 1700 SEK will be invoiced to accepted participants. This includes lunches, coffee and snacks, and course dinner.
*Please note that NBIS cannot invoice individuals

Course content

This workshop will introduce the best practice bioinformatics methods for processing and analyses of RNA-seq data via a series of lectures and computer practicals.

Topics covered will include:

  • RNA seq introduction
  • RNA seq read mapping programs
  • RNA seq QC analysis
  • Differential expression analysis
  • Gene set enrichment analysis

Entry requirements

Required for being able to follow the course and complete the computer exercises:

  • Basic knowledge in Linux
  • Ability to bring your own laptop with R installed for the practical exercises


  • Experience working on the SNIC center Uppmax or another HPC. We encourage participants to run Uppmax tutorial before the course
  • Experience working with NGS data analysis or completed the NBIS workshop “Introduction to Bioinformatics using NGS data”
  • Experience working in R or completed the NBIS course “R Programming Foundations for Life Scientists”

Due to limited space the course can accommodate a maximum of 20 participants. If we receive more applications, participants will be selected based on several criteria. Selection criteria include correct entry requirements, motivation to attend the course as well as gender and geographical balance.

How to apply