Efficient Data Structures in Computational Microbiological Research

This is a block (pro)seminar covering topics related to efficient data structures in computational microbiological research. It is intended for Bioinformatics students only.

Tutor: Cedric Laczny

Dates:

Registration	From October 25th to November 1st, 2016 – HERE
De-registration deadline	Februar 1st, 2017
Kick-off meeting	January 18th, 2017 – 15:00 s.t – E2.1 room 206
Deadline for the 1st version of slides	February 13th, 2017
Presentations	March 13th, 2017 – 09:00 s.t – E2.1 room 206
Summary submission deadline	March 20th, 2017

Place and Time:

E2.1, room 206, 09:00 s.t.

Requirements for participation:

Proseminar: at least in 3rd semester, Bioinformatics I

Certificate requirements:

Submitting the first version of the slides (see presentation guidelines and presentation guidelines checklist)
Successful presentation:
- Talk: 30 minutes (proseminar); 40 minutes (seminar)
- Questions from the audience after the presentation
Attendance to all presentations
Submitting a summary (ca. 2 pages)

Topics: As indicated by the title of this course, the emphasis is on the efficient data structures, rather than any detailed biological results.

Nr.	Presentation	Topic	Participant
1	Seminar	Scaling metagenome sequence assembly with probabilistic de Bruijn graphs	Andreas D.
2	Seminar	Mash: fast genome and metagenome distance estimation using MinHash	Vanessa S.
3	Seminar	Kraken: ultrafast metagenomic sequence classification using exact alignments	Waqas D.
4	Seminar	Minimap and miniasm: fast mapping and de novo assembly for noisy long sequences	Ngaha J.
5	Seminar	MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph	Khushboo A.