You are here: home » teaching » 2019summer » bioappgere

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

teaching:2019summer:bioappgere [2019/03/11 11:50]
 teaching:2019summer:bioappgere [2020/02/14 09:07] (current)
Line 1: Line 1:
 +====== Practical Course: Bioinformatics Applications in Genome Research ======
 +\\ 
  
 +
 +| 392181 ​ | Schulz ​ | Block 04.03.2019-15.03.2019 - 9:30-17:30 Uhr in V6-116 ​ | [[https://​ekvv.uni-bielefeld.de/​kvv_publ/​publ/​vd?​id=152987362|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, 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                   | --                                                         | --                           |
 +
 +
 +----
 +Back to [[:​teaching|Teaching]]