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

| [[https://ekvv.uni-bielefeld.de/kvv_publ/publ/vd?id=514784033 | 392181]] | Bohnenkämper | Block 10.03.- 21.03. 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, 10.03. | Shell/Snakemake Crash Course                         |   |Sina                             |
| Tue, 11.03.   | Assembly                    |Maryam  |Maryam  |
| Wed, 12.03. | Finishing                             |Sina  |Sina  |
| Thu, 13.03. |Gene Prediction |Roy          |Sina    |
| Fri, 14.03. | Genome rearrangements   |Sina  |Roy     |
| Mon, 17.03. | Hidden Markov Models (HMMs)  |Maryam  |Maryam |
|Tue, 18.03.  |Haplotype Inference  |Roy  |Roy  |
| Wed, 19.03. |Metagenomics  |Maryam  |Maryam  |
| Thu, 20.03. |Position-Specific Scoring Matrices (PSSMs)  |Sina |Roy  |
| Fri, 21.03. | Finishing Up  |   |   |



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