300353 UE Applied programming for Bioinformatics (2022W)

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

ON-SITE

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 08.09.2022 14:00 to Th 22.09.2022 18:00
Deregistration possible until Mo 31.10.2022 18:00

Details

max. 25 participants

Language: English

Lecturers

Florian Goldenberg

Classes (iCal) - next class is marked with N

Wednesday, 5.10.2022 is reserved for the preliminary organizational meeting.

    
    Wednesday
    05.10.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    12.10.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    19.10.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    09.11.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    16.11.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    23.11.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    30.11.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    07.12.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    14.12.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    11.01.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    18.01.
    11:30 - 13:00
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Wednesday
    25.01.
    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

Association in the course directory

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

Last modified: Mo 23.01.2023 14:09