Date: 26 May 2023 @ 08:30 - 16:30

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High-throughput data analyses usually involve many data processing steps, including the use of a range of command line tools and scripts to transform, filter, aggregate and visualise data. Each tool may require a specific set of inputs and options to be defined and, as we chain multiple tools together, this can become challenging to manage. As analyses pipelines become more complex and with the ever-increasing amounts of data being collected in research, reproducible and scalable automatic workflow management becomes increasingly important.

The Snakemake workflow management system is a tool to create reproducible and scalable data analyses pipelines/workflows. Workflows are described via a human-readable, Python-based language. They can be seamlessly scaled to server, cluster, grid and cloud environments, without the need to modify the workflow definition. Finally, Snakemake workflows can entail a description of the required software, which will be automatically deployed to any execution environment.

With over 500k downloads on Bioconda, and over 2k citations, Snakemake is a widely used and accepted standard for reproducible data science that has powered numerous research goals and publications.

This 1-day workshop will cover the principles for building workflows using Snakemake, as well as more advanced strategies to fully customise, automate and scale your analysis.

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: 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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