How to participate

Presenting: Submissions are closed!

Attending: Applications are now closed. If you do not find yourself on the list of participants, please get in touch with us by email.

Deadline: the 22nd of May

Decision: the 27th of May

Participation Confirmation Deadline: the 30th of May

Submit an abstract

As previously, there is no formal review, and the organizers reserve the right to select talks from the submissions to obtain a diverse and interesting program.


Day 1: the 13th of June 2022, 9:00 - 17:30

Speaker Title Time    
Tobias/Gunnar Welcome 9:00 - 9:15
Rayan Chikhi Minimizer Space de Bruijn Graphs for Pangenomics slides 9:20 - 9:45
Andreas Rempel Developing a standard interface for k-mer-based index structures slides 9:45 - 10:10
Nicola Cotumaccio Graph pattern matching: what if labels can be strings? slides 10:10 - 10:35
Ramin Shirali Hossein Zade HAT: Haplotype Assembly Tool using short and long reads 11:00 - 11:25
Jasper van Bemmelen An optimized amplicon sequencing approach to estimating SARS-CoV-2 variant abundances in wastewater 11:25 - 11:50
Sandra Romain SVJedi-graph: using a variation graph to improve structural variant genotyping with long reads slides 11:50 - 12:15
Lunch break        
Luca Parmigiani Open and closed pangenomes with k-mer counting slides 13:15 - 13:40
Manuel Cáceres Chaining for Accurate Alignment of Erroneous Long Reads to Acyclic Variation Graphs slides 13:40 - 14:05
Jorge Avila Cartes Accurate classification of SARS-CoV-2 clades using Frequency Chaos Game Representation 14:05 - 14:30
Coffee break        
Antoine Limasset Toward optimal fingerprint indexing for large scale genomics 14:40 - 15:05
Lucas Robidou fimpera: low memory counting Approximate Membership Query slides 15:05 - 15:30
Roland Wittler Bit-encoding of canonical k-mers slides 15:30 - 15:55
Coffee break        
Yoshihiro Shibuya Space-efficient sets differences with applications to Jaccard estimation slides 16:15 - 16:40
Sebastian Schmidt Minimum plain text representation of kmer sets 16:40 - 17:05
Victor Epain The reverse complement symmetry advantage of DNA fragments relationships for their storage in a directed graph slides 17:05 - 17:30

Day 2: the 14th of June 2022, 9:00 - 16:00

Speaker Title Time    
Nicola Rizzo Suffix Tree Maneuvers for the Construction of Elastic Founder Graphs 9:00 - 9:25
Konstantinn Bonnet Constructing founder sets under allelic and non-allelic homologous recombination slides 9:25 - 9:50
Karel Brinda Efficient and Robust Search of Microbial Genomes via Phylogenetic Compression 9:50 - 10:15
Coffee break        
Barış Ekim Approximate pattern counting in de Bruijn graphs is #W[1]-hard 10:30 - 10:55
Pengfei Wang Autocorrelations of strings: an upper bound. 10:55 - 11:20
Diego Diaz Efficient computation of MEMs in string collections using dictionary-based compression 11:20 - 11:55
Lunch break        
Jarno Alanko Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT) slides 13:00 - 13:25
Giulio Ermanno Pibiri PTHash: Revisiting FCH Minimal Perfect Hashing slides 13:25 - 13:50
Jens Zentgraf Fast gapped k-mer counting with subdivided multi-way bucketed Cuckoo hash tables slides 13:50 - 14:15
Coffee break        
Fernando Hugo Cunha Dias Fast, Flexible, and Exact Minimum Flow Decompositions via Integer Linear Programming 14:30 - 14:55
Frederick Oehl Would like to give a talk on his Master project, if at all possible. slides 14:55 - 15:20
Andreas Grigorjew Width Helps and Hinders Splitting Flows slides 15:20 - 15:55
Tobias/Gunnar Closing remarks 15:55 - 16:00


If you do not wish to have your name on the list, please contact us at! Find your name here



  • Monday, the 13th of June, 9:00 to 17:30: first workshop day
  • Tuesday, the 14th of June, 9:00 to 16:00: second workshop day


Haus der Universitaet

The workshop will take place in Düsseldorf, Germany at Haus der Universität building in the city center. Here are information on how to get there.

Where to stay

Haus der Universität is in the center of the city, if you stay in any of these areas (not an exhaustive list), you can get to the venue quite easily.

  • Main staion (Düsseldorf Hbf) would be not more than 10 to 15 minutes walk.
  • Altstadt
  • Unterbilk
  • Bilk
  • Pempelfort
  • Flingern Nord

If you stay around the University which is in the south of the city, it is not more than 10 to 15 minutes by metro to the venue. Please do not hesitate to write an email for information about the city.


  • Fawaz Dabbaghie
  • Daniel Doerr
  • Sabine Gierling
  • Gunnar Klau
  • Tobias Marschall
  • Max Ried

Picture Index