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Course

BIO-210: Applied software engineering for life sciences

Summary

We learn and apply software engineering principles to develop Python projects addressing life science problems. Projects will be expanded iteratively throughout the semester.

Lectures

Instructor

Alexander Mathis

Alexander studied pure mathematics with a minor in logic and theory of science at the Ludwig Maximilians University in Munich. For his PhD also at LMU, he worked on optimal coding approaches to elucidate the properties of grid cells. As a postdoctoral fellow with Prof. Venkatesh N. Murthy at Harvard University and Prof. Matthias Bethge at Tuebingen AI, he decided to study olfactory behaviors such as odor-guided navigation, social behaviors and the cocktail party problem in mice. During this time, he increasingly got interested sensorimotor behaviors beyond olfaction and started working on proprioception, motor adaption, as well as computer vision tools for measuring animal behavior. In his group, he is interested in elucidating how the brain gives rise to adaptive behavior. One of the major goals is to synthesize large datasets into computationally useful information. For those purposes, he develops algorithms and systems to analyze animal behavior (e.g. DeepLabCut), neural data, as well as creates experimentally testable computational models.

Official source

https://edu.epfl.ch/coursebook/en/applied-software-engineering-for-life-sciences-BIO-210

Moodle Page

http://go.epfl.ch/BIO-210

Summary

We learn and apply software engineering principles to develop Python projects addressing life science problems. Projects will be expanded iteratively throughout the semester.

Lectures

Instructor

Alexander Mathis

Official source

https://edu.epfl.ch/coursebook/en/applied-software-engineering-for-life-sciences-BIO-210

Moodle Page

http://go.epfl.ch/BIO-210

Ontological neighbourhood

Computer engineering

Software development: Software development process

Theoretical computer science

Programming language theory: High-level programming languages

Psychology

Basic psychology: Cognitive psychology

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