Information for students

This is a mandatory course for students in the MSc Bioinformatics.

The modul consists of a lecture, a seminar and exercises which will be blocked according to the respective topic. This means we will have first several lectures, followed by exercises, followed by seminars. One block is concluded with a review test about the content.

Content: Requirements for "aktive Teilnahme":

  • You have to be prepared to give a seminar talk (if it's your group's turn). 
  • In addition you need to reach 50% of all points of the reviews. 

Seminar group A:  
Seminar group B: 
Seminar group C: 
Seminar group D: 

Content

Here you will find the corresponding videos.

#    Date       Event
1  19.04.  L: Suffix array search
2  19.04  L: LCP computation
3  21.04.  L: Suffix array construction
4  03.05.  Exercise
5  03.05.  Exercise
6  05.05.  S: DisLex: a transformation for discontiguous suffix array construction (A)
7  10.05.  Review 1
8  10.05.  L: Onedirectional FM-indices
9  12.05. Exercise
10  17.05.  L: Bidirectional FM-indices
11  17.05.  L: Extensions of FM-indices
12  24.05.  Exercise
13  24.05  S: Chapters 11.1 and 11.2 of the book Compact Data structures (B)
14  31.05  Review 2
15  31.05.  L: k-mer based analysis I
16  02.06.  L: k-mer based analysis II
17  07.06.  L: k-mer based analysis III
18  07.06.  Exercise
19  09.06.  Exercise
20  14.06.  S: Quotient filter (C)
21  14.06.  S: Counting Quotient filter (D)
22  16.06.  Review 3
23  21.06.  L: Filter I
24  21.06.  L: Filter II
25  23.06.  Exercise
26  28.06.  Exercise
27  28.06.  S: Genmap (A)
28  30.06  S: Adaptive Seeds (B)
29  05.07.  Review 4
30  05.05.  L: Haplotyping I
31  07.07.  L: Haplotyping II
32  12.07.  Exercise
33  12.07.  Exercise
34  14.07.  S: (C+D) HapCUT: an efficient and accurate algorithm for the haplotype assembly problem
35  19.07.  Q&A
36  19.07.  Buffer
37  21.07.  Exams