2-AIN-506, 2-AIN-252: Seminar in Bioinformatics (2), (4)
Leto 2023
List of papers
- Lianrong Pu, Ron Shamir.
4CAC: 4-class classification of metagenome assemblies using machine learning and assembly graphs.
bioRxiv 2023.01.20.524935,
2023.
[ Abstract ] [ Download from publisher ] [ BibTeX ]
- Christina Boucher, Dominik Köppl, Herman Perera, Massimiliano Rossi.
Accessing the Suffix Array via ϕ-1-Forest.
In SPIRE 2022,
[ Abstract ] [ BibTeX ]
- Jun Ma, Manuel Cáceres, Leena Salmela, Veli Mäkinen, Alexandru I. Tomescu.
Chaining for Accurate Alignment of Erroneous Long Reads to Acyclic Variation Graphs.
Technical Report 2022.01.07.475257, bioRxiv,
2022.
[ Abstract ] [ Download from publisher ] [ BibTeX ]
- Julian Padro, Diego N. {De Panis}, Pierre Luisi, Hernan Dopazo, Sergio Szajnman, Esteban Hasson, Ignacio M. Soto.
Ortholog genes from cactophilic Drosophila provide insight into human adaptation to hallucinogenic cacti.
Sci Rep,
12(1):13180.
2022.
[ Abstract ] [ BibTeX ] [ PubMed ]
- Jens-Uwe Ulrich, Ahmad Lutfi, Kilian Rutzen, Bernhard Y. Renard.
ReadBouncer: Precise and Scalable Adaptive Sampling for Nanopore Sequencing.
Technical Report 2022.02.01.478636, bioRxiv,
2022.
[ Abstract ] [ Download from publisher ] [ BibTeX ]
- Tomasz Kociumaka, Gonzalo Navarro, Francisco Olivares.
Near-Optimal Search Time in 𝛿 -Optimal Space.
In LATIN 2022,
2022.
[ Abstract ] [ Download from publisher ] [ BibTeX ]
- Tuukka Norri, Bastien Cazaux, Saska Donges, Daniel Valenzuela, Veli Makinen.
Founder Reconstruction Enables Scalable and Seamless Pangenomic Analysis.
Bioinformatics,
37(24):4611-4619.
2021.
[ Abstract ] [ BibTeX ] [ PubMed ]
- Timour Baslan, Sam Kovaka, Fritz J. Sedlazeck, Yanming Zhang, Robert Wappel, Sha Tian, Scott W. Lowe, Sara Goodwin, Michael C. Schatz.
High resolution copy number inference in cancer using short-molecule nanopore sequencing.
Nucleic acids research,
49(21):e124.
2021.
[ Abstract ] [ BibTeX ] [ PubMed ]
- Veli Mäkinen, Bastien Cazaux, Massimo Equi, Tuukka Norri, Alexandru I. Tomescu.
Linear Time Construction of Indexable Founder Block Graphs.
In WABI 2020,
[ Abstract ] [ Download from publisher ] [ BibTeX ]
- Heng Li, Xiaowen Feng, Chong Chu.
The design and construction of reference pangenome graphs with minigraph.
Genome biology,
21(1):265.
2020.
[ Abstract ] [ Download from publisher ] [ BibTeX ] [ PubMed ]
- Travis Gagie, Gonzalo Navarro, Nicola Prezza.
Fully functional suffix trees and optimal text searching in BWT-runs bounded space.
Journal of the ACM,
2020.
[ Abstract ] [ Download from publisher ] [ BibTeX ]
- Marcel Martin, Murray Patterson, Shilpa Garg, Sarah O Fischer, Nadia Pisanti, Gunnar W Klau, Alexander Schöenhuth, Tobias Marschall.
WhatsHap: fast and accurate read-based phasing.
Technical Report 10.1101/085050, bioRxiv,
2016.
[ Abstract ] [ Webpage ] [ BibTeX ]
