300353 UE Applied programming for Bioinformatics (2023W)

Principles and techniques for simple programming to solve biological problems, using a common programming language. Practical experience with text processing and automation of external programms.

10.00 ECTS (6.00 SWS), SPL 30 - Biologie

Continuous assessment of course work

Moodle

Registration/Deregistration

Note: The time of your registration within the registration period has no effect on the allocation of places (no first come, first served).

Registration is open from Th 07.09.2023 14:00 to Th 21.09.2023 18:00
Deregistration possible until Su 15.10.2023 18:00

Details

max. 25 participants

Language: English

Lecturers

Florian Goldenberg

Classes (iCal) - next class is marked with N

Unclear participation is solved on Wednesday, 4.10.2023

    
    Wednesday
    04.10.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    11.10.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    18.10.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    25.10.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    08.11.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    15.11.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    22.11.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    29.11.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    06.12.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    13.12.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    10.01.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    17.01.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    24.01.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    31.01.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1

Information

Aims, contents and method of the course

An orientation in the programming languages used in Biology/Bioinformatics and how to set up a programming environment is given. The most common language in the field, python, is then used to teach programming basics such as data types, assignments, flow control, functions and procedures, debugging. Regular expressions and their applications are shown. Finding and using existing programming libraries as well as Interacting with databases and some basic object orientation is also part of the course. Additionally, program packages specific for Bioinformatics and some alterantive languages are presented.
The aim is to enable students of Bioinformatics or Biology to be able to create small programs that are applicable in their further research.

Assessment and permitted materials

Solutions to exercises which are given at the end of every lecture are handed in weekly and a larger project at the end of the course has to be coded.. Grading is based on the completion of exercises and the final project.

Minimum requirements and assessment criteria

All exercises and the final project are graded individually, based on the completeness (if all tasks are done) and correctness (if all requirements are fulfilled).
Each exercise accounts for 8% of the total grade, and the final project accounts for 30%.
Passing the course requires at least 51% (in any combination of exercises)

Examination topics

The course will be in the form of short lectures, followed by longer individual exercises at home. A larger applied exercise/project is given at the end of the course. Students need their own computer.

Reading list

There will be helpfil links in the lecture, a list of literature makes no sense here.

Association in the course directory

M-WZB, MMB W-2, MMB W-3, MGE III-2

Last modified: Th 14.09.2023 10:48