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teaching:2018summer:bioappgere [2020/02/14 09:07] (current)
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 +====== Practical Course: Bioinformatics Applications in Genome Research ======
 +\\ 
  
 +
 +| 392181 ​ | Schulz ​ | Block 12.03.2017-23.03.2017 - 9:30-17:30 Uhr in V6-116 ​ | [[https://​ekvv.uni-bielefeld.de/​kvv_publ/​publ/​vd?​id=119694679|ekvv]] ​ |
 +
 +===== 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, 12.3. | Shell                   | Tizian: //​Introduction to Python// | Christina |
 +| Tue, 13.3. | Assembly ​               | Jan: //Genome Assembly, de Brujin Graphs// | Christina |
 +| Wed, 14.3. | Finishing ​              | Jan: //BWA// | Maria |
 +| Thu, 15.3. | Genome rearrangements I | Maria: //​Rearrangement distances// | Jan |
 +| Fri, 16.3. | Genome rearrangements II| Maria: //Circos tutorial// | Yannik |
 +| Mon, 19.3. | Gene Prediction ​        | Yannik: //Gene Prediction (software: Glimmer, Prodigal)// | Jan |
 +| Tue, 20.3. | Hidden Markov Models (HMMs)| Yannik: //HMMs// | Yannik |
 +| Wed, 21.3. | Position-Specific Scoring Matrices (PSSMs)| Christina: //PSSMs// | Maria |
 +| Thu, 22.3. | Metagenomics ​           | Christina: //​Metagenomics//​ | -- |
 +| Fri, 23.3. | Finishing the Circos plot  | -- | -- |
 +
 +
 +----
 +Back to [[:​teaching|Teaching]]