Welcome to the Wiki of the Lecture Sequence Analysis. This module consists of 2 hours lecture, 2 hours exercise and 2 hours seminar. The form will be in blocks, in which you will hear about certain aspects of sequence analysis in the lecture, then in the ecercises you will work out details prepare for the seminar.
In the seminar we will all talk about an original paper connected to the topic (discussion leaders will be chosen by a draw) and afterwards have a short review exam for the block. Students will be in two groups (A and B) which will take turn in giving seminar talks.
Each block is finished by a review.
For the exam the content of the seminar papers AND lectures will be relevant.
Event | Day | Time | Address | Room |
---|---|---|---|---|
Lecture (until June 4th) | Tuesday | 10-12 | Takustr. 9 | SR 005 |
Lecture (after June 4th) | Tuesday | 10-12 | Arnimallee 6 | SR 032 |
Exercise (until June 6th) | Thursday | 10-12 | Takustr. 9 | SR 005 |
Exercise (after June 6th) | Thursday | 10-12 | Takustr. 9 | SR 053 |
Seminar | Friday | 14-16 | Takustr. 9 | SR 005 |
Date | Lecture | |
---|---|---|
31.06.2013 | Exercise | |
30.05.2013 | Exercise exercise_6.pdf | |
30.04.2013 | Exercise exercise_4.pdf | |
28.06.2013 | Exercise exercise_8.pdf | |
28.05.2013 | Lecture 8: BWT 2 | |
27.06.2013 | Exercise | |
26.04.2013 | Exercise exercise_3.pdf | |
25.06.2013 | Lecture 11: RNA I | |
25.04.2013 | Lecture 4: Lazy suffix trees | |
24.05.2013 | Lecture 7: BWT 1 | |
24.05.-07.06. | The BWT: searching in the FM index | |
23.05.2013 | Review 3 | |
23.04.2013 | Lecture 3: Linear time construction with the SKEW algorithm | |
23.04.-09.05. | Suffix arrays: construction | |
21.06.-25.06. | RNA analysis | |
21.05.2013 | Seminar 5 (A/B): Replacing suffix trees with enhanced suffix arrays | |
20.06.2013 | Review 5 | |
19.04.2013 | Review 1 | |
18.06.2013 | Seminar 7 (A+B): Masai.pdf | |
18.04.2013 | Seminar 1 (A): Two Space Saving Tricks for Linear Time LCP Array Computation (Manzini) | |
17.05.2013 | Exercise | |
16.05.2013 | Exercise exercise_5.pdf | |
16.04.2013 | Exercise (see Exercise 1) | |
14.06.2013 | Exercise exercise_7.pdf | |
14.05.2013 | Lecture 6: Enhanced suffix arrays 2 | |
13.06.2013 | Exercise | |
12.07.2013 | Exam | |
12.04.2013 | Exercise exercise_1+2.pdf | |
11.07.2013 | Exercise | |
11.06.2013 | Lecture 10: Filter algorithms and approximate index search | |
11.04.2013 | Lecture 2: Linear time lcp computation (Kasai) | |
10.05.2013 | Lecture 5: Enhanced suffix arrays 1 | |
10.05.-22.05. | Suffix arrays: navigating | |
09.07.2013 | Exercise exercise_9.pdf | |
09.04.2013 | Lecture 1: Organisation, Rehearsal suffix array construction and search | |
09.04.-19.04. | Suffix arrays: searching with lcp array | |
07.06.2013 | Lecture 9: Filter algorithms | |
07.06.-20.06. | Filtering and approximate search in indices | |
07.05.2013 | Review 2 | |
06.06.2013 | Review 4 | |
05.07.2013 | Lecture 13: Genome comparison II | |
04.07.2013 | Lecture 12: Genome comparison I | |
04.07.-12.07 | Genome comparison | |
04.06.2013 | Seminar 6 (B): High throughput short read alignment via bi-directional BWT | |
03.05.2013 | Seminar 3 (A): An incomplex algorithm for fast suffix array construction | |
02.07.2013 | Review 5 | |
02.05.2013 | Seminar 2 (B): DisLex a transformation for discontiguous suffix array construction |
Group A | Group B |
---|---|
Phieler | Hesse |
Schmoldt | Martens |
Matzig | Eckert |