Monday, Feb 3
Tuesday, Feb 4 Inria/Irisa Campus de Beaulieu - Room Petri/Turing http://www.irisa.fr/en/access-map
9:15 Welcome all - few technical information
9:30
Cost-optimal assignment of elements in genome-scale multi-way bucketed Cuckoo hash tables
Jens Zentgraf, Henning Timm and Sven Rahmann
10:00
Faster Xenograft Sorting with 3-Way Bucketed Cuckoo Hashing of k-mers
Jens Zentgraf and Sven Rahmann
**10:30 Coffee break
11:00
Efficient and scalable representation of k-mer sets using simplitigs and spectrum-preserving string sets
Amatur Rahman, Paul Medvedev, Karel Brinda, Michael Baym and Gregory Kucherov
11:30
REINDEER: efficient indexing of k-mer presence and abundance in sequencing datasets
Camille Marchet, Zamin Iqbal, Mikaël Salson and Rayan Chikhi
12:00 Lunch
13:30
Hierarchical Organization of Syntenic Blocks in Large Genomic Datasets
Daniel Doerr
14:00
viaDBG - Fast and accurate approach for viralquasispecies inference
Borja Freire, Susana Ladra, José Ramón Paramá and Leena Salmela
14:30
Space-efficient indexing of spaced seeds for accurate overlap computation of raw optical mapping data
Riku Walve, Simon Puglisi and Leena Salmela
15:00 Coffee break
15:30
Computing longest common substring with k mismatches: Theory and practice
Garance Gourdel, Tomasz Kociumaka, Jakub Radoszewski and Tatiana Starikovskaya
16:00 [Work In Progress]
BCash: Best Compressible Hash
Antoine Limasset
16:30 [Work In Progress]
HowDeSBT and Simka wedding. What has been done and what we plan to do
Téo Lemane, Paul Medvedev, Rayan Chikhi, Pierre Peterlongo
17:00 Time for discussion
19:00 Diner at restaurant “Origines” Hotel Dieu http://origines-rennes.fr/
Wednesday, Feb 5 Inria/Irisa Campus de Beaulieu - Room Petri/Turing http://www.irisa.fr/en/access-map
9:00
In-Place Bijective Burrows Wheeler Transformations
Dominik Köppl, Daiki Hashimoto, Diptarama Hendrian and Ayumi Shinohara
9:30 [Work In Progress]
Dynamic quasi-minimal perfect hash function for k-mers
Paola Bonizzoni, Luca Denti, Erik Garrison, Yuri Pirola and Marco Previtali
10:00
Million sequences indexing
Antoine Limasset
10:30 Coffee break
11:00
Optical map guided genome assembly
Miika Leinonen and Leena Salmela
11:30
srnaMapper: a mapping tool for short-RNA sequencing
Matthias Zytnicki
12:00
Shark: fishing in a sample to discard irrelevant RNA-Seq reads
Paola Bonizzoni, Tamara Ceccato, Gianluca Della Vedova, Luca Denti, Yuri Pirola, Marco Previtali and Raffaella Rizzi
12:30 Lunch
13:30
HASLR: Fast Hybrid Assembly of Long Reads
Ehsan Haghshenas, Hossein Asghari, Jens Stoye, Cedric Chauve, Faraz Hach
14:00
Reference independent somatic structural variant call
Taiki Yamada, Kenichi Chiba, Nozomi Hasegawa, Keisuke Kataoka, Yuichi Shiraishi and Kana Shimizu
14:30 [Work In Progress]
Superstring Graph in compact space
Bastien Cazaux and Eric Rivals
15:00 Final Coffee break and ad libitum discussions