Date: 18 - 21 April 2023

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This workshop will focus on the core steps involved in calling variants from Illumina next generation sequencing data using the Genome Analysis Toolkit (GATK). You will learn about best practices in calling somatic variants: single nucleotide variants (SNVs), short insertion/deletions (indels) and copy number variants (CNVs). We will also cover considerations to take when calling variants on the mitochondrial genome, as well as variant calling from bulk and single-cell RNA-seq data. We will also cover how the data structures provided by GATK can help you process large datasets in parallel and at scale.
Although this workshop focuses on human data, the majority of the concepts and approaches apply to non-human data, and we will cover some adaptations needed in those situations.

The training room is located on the first floor and there is currently no wheelchair or level access available to this level.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book or register Interest by linking here.''

Keywords: HDRUK

Venue: Craik-Marshall Building

City: Cambridge

Country: United Kingdom

Postcode: CB2 3AR

Organizer: University of Cambridge

Host institutions: University of Cambridge Bioinformatics Training

Target audience: The course is aimed at life scientists interested in genomic variant analysis and its applications. We don’t assume prior experience in this topic, but it is essential to have command line experience and a basic understanding of sequencing technologies. This course is also suitable for participants with prior experience in other types of ‘omics’ data analysis (e.g. RNA-seq), who would like to learn about this topic., Graduate students, Postdocs and Staff members from the University of Cambridge, Institutions and other external Institutions or individuals, After you have booked a place, if you are unable to attend any of the live sessions and would like to work in your own time, please email the Team as Attendance will be taken on all courses. A charge is applied for non-attendance, including for registered university students.

Event types:

  • Workshops and courses

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