Universität Wien

300026 SE Computational methods in microbial ecology (2024S)

3.00 ECTS (2.00 SWS), SPL 30 - Biologie
Continuous assessment of course work

Moodle
We 08.05. 13:15-16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1

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).

Details

max. 18 participants
Language: English

Lecturers

Classes (iCal) - next class is marked with N

Wednesday 06.03. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 13.03. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 20.03. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 10.04. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 17.04. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 24.04. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 15.05. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 22.05. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 29.05. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 05.06. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 12.06. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 19.06. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday 26.06. 13:15 - 16:00 Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1

Information

Aims, contents and method of the course

• Mathematical concepts in microbial ecology
• Statistics of high-dimensional data
• Estimating diversity and composition of microbial communities
• Databases and resources in microbial ecology
• DNA sequencing in microbial ecology (amplicon sequencing, shotgun metagenomics)
• Computational pipelines for amplicon sequencing: overview, features, evaluation
• Phylogenetic analysis
• Fundamentals of machine-learning for microbial ecology
• Intro to high performance computing

Assessment and permitted materials

Regular quizzes and homework assignments. Homeworks contribute 50% to the final grade and quizzes contribute 50%. Participants should bring a laptop for in-class exercises. A passing grade is >50% of combined assessments.

Minimum requirements and assessment criteria

Minimum requirements: No computer programming knowledge required.

Assessment criteria:
Understanding relevant mathematical and computational methods in microbial ecology. Applying these methods to typical problems in microbial ecology and designing experiments. Performing mathematical and computational experiments using typical software programs. Presenting and interpreting the results of mathematical and computational experiments. Understanding and discussing recent scientific literature.

Examination topics

This course will consist of theoretical lectures, discussion of selected scientific papers and practical exercises (mainly using the computers of the participants).

Reading list

Will be provided throughout the course on the e-learning platform.

Association in the course directory

MMEI II-2.2,MMEI III, MMB W-2, MMB W-3

Last modified: Tu 16.04.2024 14:26