====== Practical Course: Bioinformatics Applications in Genome Research ======

| [[https://ekvv.uni-bielefeld.de/kvv_publ/publ/vd?id=456366852 | 392181]] | Bohnenkämper | Block 18.03.- 28.03. 9:30-17:30 |


===== Content =====
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. 


  * Requires participation in the lecture "Algorithms in Genome Research" or similar. 
  * Beside regular and active participation in the course, each student gives a short (15min) presentation and presents their results to the other participants. 

===== Overview =====


| **Date**    | **Topic**                                   | **Presentation**                                           | **Solution (for next day)**  |
| Mon, 18.03. | Shell/Snakemake Crash Course                         |   | Hauke                                           |
| Tue, 19.03.   | Assembly                    | Olívia   |Lasse                      |
| Wed, 20.03. | Finishing                             | Hauke |Olívia |
| Thu, 21.03. |Gene Prediction |Aaron                               |Aaron                     |
| Fri, 22.03. | Genome rearrangements                              | Lasse  |Aaron                  |
| Mon, 25.03. | Hidden Markov Models (HMMs)  | Hauke  |Hauke  |
|Tue, 26.03.  |Haplotype Inference  |Lasse   |Lasse  |
| Wed, 27.03. |Metagenomics  | Olívia |Olívia   |
| Thu, 18.03. |Position-Specific Scoring Matrices (PSSMs)  |Aaron |   |




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