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E8: Analysis of genomics data with R/Bioconductor – 45038

(2 hrs/week, 2 CP; Spring 2021, Lecture and exercises)

Florian Geier, Robert Ivanek, Panagiotis Papasaikas, Julien Roux, Atul Sethi, Jenny Charlotte Soneson, Michael Stadler

The R/Bioconductor framework is the most widely used analysis tool for sequence-based
bioinformatics. The lecture gives an overview of typical Bioconductor based analysis pipelines
including:

  • NGS data processing (RNAseq, single-cell RNAseq, ChIPseq), with focus on differential expression analysis
  • Working with sequence and annotation packages
  • Programmatic access to public databases
  • Visualization of genomic data


Each lecture is organized around one analysis question using publicly available data. It consists of 1-hour lecture and 1 hour hands on practical. Participants should bring along their laptops. Basic R knowledge is of an advantage.