392181 | Schulz | Block 04.03.2019-15.03.2019 - 9:30-17:30 Uhr in V6-116 | ekvv |
In this course, practical applications and issues in concrete problem statements and handling real data sets will be addressed. The following topics are intended: assembly, scaffolding, annotation, gene prediction, comparative analysis, etc.
Theoretical knowledge of the students shall be supplemented by practical aspects such as setting up and running existing tools, implementing small own tools, pre- and postprocessing, and critical interpretation of results. A continuously enriched visualization of the data and the obtained results will also guide through the course.
Date | Topic | Presentation | Solution (for next day) |
Mon, 4.3. | Shell | Tizian: Introduction to Python | Timo |
Tue, 5.3. | Assembly | Andreas: Genome Assembly, de Brujin Graphs | Andreas |
Wed, 6.3. | Finishing | Andreas: BWA | Andreas |
Thu, 7.3. | Genome rearrangements I | Timo: Rearrangement distances | Timo |
Fri, 8.3. | Genome rearrangements II | Kevin: Circos tutorial | Kevin |
Mon, 11.3. | Gene Prediction | Giulia: Gene Prediction (software: Glimmer, Prodigal) | Giulia |
Tue, 12.3. | Hidden Markov Models (HMMs) | Giulia: HMMs | Giulia |
Wed, 13.3. | Position-Specific Scoring Matrices (PSSMs) | Kevin: PSSMs | Kevin |
Thu, 14.3. | Metagenomics | Timo: Metagenomics | Everyone |
Fri, 15.3. | Finishing the Circos plot | – | – |
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