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Implementation of Algorithms (1Ü)

392231 Stoye Winter 2018/19 Class hours by appointment
Final presentation:

Monday, 2019 January 28, at 14h c.t. in U10-146 or Monday, 2019 February 11, at 14h c.t. in U10-146.

Procedure:

Each participant implements a (simple) algorithm in a programming language of their own choice. Topics will be distributed individually: meet or send email to the organizer, a lecturer of any other class or seminar in the modules Algorithms in Bioinformatics or Special Algorithmus in Bioinformatics. The focus of the implementation shall be on code readability and optimal asymptotics, which ideally is verified by systematic testing.

The source code and some test data (where applicable) has to be sent to the organiser one week before the final presentation. During the final presentation, every participant runs and explains her/his software in front of everybody. If the result is not satisfactory, a correction can be provided until the end of the semester.

Distributed topics:
To be presented January 28, 2019 Name
Extracting splits from a colored compacted de-Bruijn graph Andreas Rempel
Agglomerative clustering Lukas Micke
Konstruktion von Suffixbäumen mit WOTD Jasmin Hartmann
To be presented February 11, 2019 Name
Hirschberg-Algorithmus in Haskell Leonard Bohnenkämper
Gotoh-Algorithmus für paarweises Alignment mit affinen Gapkosten Lukas Schulte
Sankoff's Small Parsimony Fabienne Thelen
Neighbor Joining Denis Spoljar
Suffix array construction with Manber-Myers Jannis Göke

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