Course content
With genomics projects come a deluge of data. Its availability can be as exciting as it is frustrating, with students and postdocs needing to learn novel tools, including programming languages and the ins-and-outs of working within a High-Performance Computing (HPC) environment. This course aims to equip students with tools to solve practical problems with analyzing large genomic datasets that require scripting and access to an HPC.
This course covers the following topics, offering both theoretical and practical classes:
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Introduction to UNIX and the command line
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Best practices for using Saga, the Norwegian academic HPC system
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Building your own bioinformatic toolkit: How to manually install programs; introduction to “conda”, a popular software management package; how to see and load programs that are readily available to users in Saga
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Develop a workflow for assembling plastid data, and performing BLAST alignments
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R/R-studio for data management, querying databases, and graphical applications
Teachers: José Cerca, Emma Whittington and Mike D. Martin
Credits: 3 ECTS will be offered to all participants successfully completing the written assignment based on exercises given during the course. Grade: Pass/Fail.
Level: PhD-level course, aimed at early-stage Ph.D. students. Post-docs with little bioinformatics experience may apply as well. Motivated M.Sc. students will also be considered.
Fee: There is no course fee.
Registration is now closed as we have reached our full capacity for the course.
Application: Please use this form to register. This course is planned to run as an on-line course due to Covid-19 restrictions. Should the situation be improved, we shall try to enable in-person participation at least for the participants based in Norway. In this case, the course will take place at Drøbak Marine station, UiO.
Maximum number of participants: 18.
Click here for the course programme.
The application deadline is 22 March 2021.
Contact Galina Gusarova (galina.gusarova@uit.no) for more information.