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":
Seminar group A:
Seminar group B:
Seminar group C:
Seminar group D:
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 |
| Course No | Course Type | Hours |
|---|---|---|
| 19405311 | Seminar | 2 |
| 19405301 | Vorlesung | 2 |
| 19405302 | Übung | 2 |
| Time Span | 14.04.2020 - 14.07.2020 |
|---|---|
| Instructors |
Sven Bönigk
Svenja Mehringer
Knut Reinert
|
| 0089c_MA120 | 2014, MSc Informatik (Mono), 120 LPs |
| 0262b_MA120 | 2012, MSc Bioinformatik (Mono), 120 LPs |
| 0262c_MA120 | 2019 (ÄO 2021), MA Bioninformatik (Mono), 120 LP |
| Day | Time | Location | Details |
|---|---|---|---|
| Tuesday | 12-14 | T9/053 Seminarraum | 2020-04-14 - 2020-07-14 |
| Friday | 14-16 | A3/019 Seminarraum | 2020-04-17 - 2020-07-17 |
| Day | Time | Location | Details |
|---|---|---|---|
| Thursday | 14-16 | T9/055 Seminarraum | Übung 01 |
| Sunday | ? - ? | Pseudotutorium zur Kapazitätsplanung - potentielle Übungsteilnehmer melden sich bitte hier an! |