Metagenomics, 1 hp


National course hosted by the BILS Annotation Platform, a national resource for genome annotation. The course is open for PhD students, postdocs, researchers and other employees in need of bioinformatic skills within all Swedish universities.

Application form

Important dates

Application open: August

Application deadline: October 14

Confirmation to accepted students: October 21

Responsible teachers: Thijs Ettema and Anders Andersson

If you don’t receive information according to the dates above, contact eva.molin@scilifelab.uu.se

Workshop fee

A workshop fee of 1000 SEK will be invoiced to accepted participants (includes the study material, coffee, lunches and course dinner).

Workshop content

During the two-day SciLifeLab metagenomics course, the participants will be brought up to date with the current state-of-the-art in the rapidly emerging field of environmental genomics, including metagenomics and single cell genomics. The course will focus on computational methods for assembly and functional annotation of environmental genomics data.

Topics covered will include:

  • Quality assessment of sequence reads
  • Assembly of metagenomic and single cell genomic datasets
  • Gene calling and functional annotation – different binning strategies for metagenomics contigs
  • Comparative metagenomics

Entry requirements

Participants must be comfortable navigating a linux shell and execute programs from the command line. Without this knowledge, it will be impossible to participate in the computer exercises. Previous experience from working with NGS data (genome assembly, transcriptome assembly, SNP calling) is a plus. Applicants are also encouraged to bring their own laptops, but there will be computers to use for participants unable to do so.

Due to space constraints for the computer exercises, there are a maximum number of allowed 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.