121 entries « 2 of 7 »
21.

Goga, Adrián; Depuydt, Lore; Brown, Nathaniel K.; Fostier, Jan; Gagie, Travis; Navarro, Gonzalo

Faster Maximal Exact Matches with Lazy LCP Evaluation Proceedings Article

In: 2024 Data Compression Conference (DCC), pp. 123–132, IEEE, 2024.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

22.

Lemane, Téo; Lezzoche, Nolan; Lecubin, Julien; Pelletier, Eric; Lescot, Magali; Chikhi, Rayan; Peterlongo, Pierre

Indexing and real-time user-friendly queries in terabyte-sized complex genomic datasets with kmindex and ORA Journal Article

In: Nature Computational Science, vol. 4, no. 2, pp. 104–109, 2024, ISSN: 2662-8457.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG, WP2: Evolutionary/Comparative CPG, WP3: Translational CPG

23.

Rizzo, Nicola; Equi, Massimo; Norri, Tuukka; Mäkinen, Veli

Elastic founder graphs improved and enhanced Journal Article

In: Theoretical Computer Science, vol. 982, no. 114269, pp. 114269, 2024, ISSN: 0304-3975.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

24.

Benoit, Gaëtan; Raguideau, Sébastien; James, Robert; Phillippy, Adam M.; Chikhi, Rayan; Quince, Christopher

High-quality metagenome assembly from long accurate reads with metaMDBG Journal Article

In: Nature Biotechnology, 2024, ISSN: 1546-1696.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

25.

Cartes, Jorge Avila; Bonizzoni, Paola; Ciccolella, Simone; Vedova, Gianluca Della; Denti, Luca; Didelot, Xavier; Monti, Davide Cesare; Pirola, Yuri

RecGraph: recombination-aware alignment of sequences to variation graphs Journal Article

In: Bioinformatics, vol. 40, no. 5, pp. btae292, 2024, ISSN: 1367-4811.

Abstract | Links | BibTeX | Tags: WP2: Evolutionary/Comparative CPG

26.

Cillari, Nico; Neri, Giuseppe; Pisanti, Nadia; Milazzo, Paolo; Borello, Ugo

RettDb: the Rett syndrome omics database to navigate the Rett syndrome genomic landscape Journal Article

In: Database, vol. 2024, 2024, ISSN: 1758-0463.

Abstract | Links | BibTeX | Tags: WP3: Translational CPG

27.

Bernardini, Giulia; Chen, Huiping; Conte, Alessio; Grossi, Roberto; Guerrini, Veronica; Loukides, Grigorios; Pisanti, Nadia; Pissis, Solon P.

Utility-Oriented String Mining Book Chapter

In: Proceedings of the 2024 SIAM International Conference on Data Mining (SDM), pp. 190–198, Society for Industrial and Applied Mathematics, 2024, ISBN: 9781611978032.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

28.

Ascone, Rocco; Bernardini, Giulia; Conte, Alessio; Equi, Massimo; Gabory, Esteban; Grossi, Roberto; Pisanti, Nadia

A Unifying Taxonomy of Pattern Matching in Degenerate Strings and Founder Graphs Proceedings Article

In: Pissis, Solon P.; Sung, Wing-Kin (Ed.): pp. 14:1–14:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2024, ISSN: 1868-8969.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

29.

Bille, Philip; Nekrich, Yakov; Pissis, Solon P.

Size-Constrained Weighted Ancestors with Applications Proceedings Article

In: 19th Scandinavian Symposium and Workshops on Algorithm Theory (SWAT 2024), pp. 14:1–14:12, Schloss Dagstuhl – Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2024, ISSN: 1868-8969.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

30.

Charalampopoulos, Panagiotis; Pissis, Solon P.; Radoszewski, Jakub; Rytter, Wojciech; Waleń, Tomasz; Zuba, Wiktor

Approximate Circular Pattern Matching Under Edit Distance Proceedings Article

In: Beyersdorff, Olaf; Kanté, Mamadou Moustapha; Kupferman, Orna; Lokshtanov, Daniel (Ed.): 41st International Symposium on Theoretical Aspects of Computer Science (STACS 2024), pp. 24:1–24:22, Schloss Dagstuhl – Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2024, ISSN: 1868-8969.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

31.

Bille, Philip; Gørtz, Inge Li; Lewenstein, Moshe; Pissis, Solon P.; Rotenberg, Eva; Steiner, Teresa Anna

Gapped String Indexing in Subquadratic Space and Sublinear Query Time Proceedings Article

In: Beyersdorff, Olaf; Kanté, Mamadou Moustapha; Kupferman, Orna; Lokshtanov, Daniel (Ed.): 41st International Symposium on Theoretical Aspects of Computer Science (STACS 2024), pp. 16:1–16:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2024, ISSN: 1868-8969.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

32.

Zuba, Wiktor; Loukides, Grigorios; Pissis, Solon P.; Thankachan, Sharma V.

Approximate Suffix-Prefix Dictionary Queries Proceedings Article

In: Královič, Rastislav; Kučera, Antonín (Ed.): 49th International Symposium on Mathematical Foundations of Computer Science (MFCS 2024), pp. 85:1–85:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2024, ISSN: 1868-8969.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

33.

Verbeek, Hilde; Ayad, Lorraine A. K.; Loukides, Grigorios; Pissis, Solon P.

Minimizing the Minimizers via Alphabet Reordering Proceedings Article

In: Inenaga, Shunsuke; Puglisi, Simon J. (Ed.): 35th Annual Symposium on Combinatorial Pattern Matching (CPM 2024), pp. 28:1–28:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2024, ISSN: 1868-8969.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

34.

Bernardini, Giulia; Chen, Huiping; Gørtz, Inge Li; Krogh, Christoffer; Loukides, Grigorios; Pissis, Solon P.; Stougie, Leen; Sweering, Michelle

Connecting de Bruijn Graphs Proceedings Article

In: Inenaga, Shunsuke; Puglisi, Simon J. (Ed.): 35th Annual Symposium on Combinatorial Pattern Matching (CPM 2024), pp. 6:1–6:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2024, ISSN: 1868-8969.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

35.

Ayad, Lorraine A. K.; Loukides, Grigorios; Pissis, Solon P.; Verbeek, Hilde

Sparse Suffix and LCP Array: Simple, Direct, Small, and Fast Proceedings Article

In: LATIN 2024: Theoretical Informatics, pp. 162–177, Springer Nature Switzerland, Cham, 2024, ISSN: 1611-3349.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

36.

Schulz, Tizian; Parmigiani, Luca; Rempel, Andreas; Stoye, Jens

Methods for Pangenomic Core Detection Book Chapter

In: Setubal, João Carlos; Stadler, Peter F.; Stoye, Jens (Ed.): Comparative Genomics: Methods and Protocols, pp. 73–106, Springer US, New York, NY, 2024, ISSN: 1940-6029.

Abstract | Links | BibTeX | Tags: WP2: Evolutionary/Comparative CPG

37.

Lipták, Zsuzsanna; Parmigiani, Luca

A BWT-Based Algorithm for Random de Bruijn Sequence Construction Proceedings Article

In: LATIN 2024: Theoretical Informatics, pp. 130–145, Springer Nature Switzerland, Cham, 2024, ISSN: 1611-3349.

Abstract | Links | BibTeX | Tags: Stringology

38.

Baláž, Andrej; Gagie, Travis; Goga, Adrián; Heumos, Simon; Navarro, Gonzalo; Petescia, Alessia; Sirén, Jouni

Wheeler Maps Proceedings Article

In: Soto, José A.; Wiese, Andreas (Ed.): LATIN 2024: Theoretical Informatics, pp. 178–192, Springer Nature Switzerland, Cham, 2024, ISSN: 1611-3349.

Abstract | Links | BibTeX | Tags: WP2: Evolutionary/Comparative CPG

39.

Sauer, Lena M.; Cánovas, Rodrigo; Roche, Daniel Barry; Shams-Eldin, Hosam; Ravel, Patrice; Colinge, Jacques; Schwarz, Ralph T.; Mamoun, Choukri Ben; Rivals, Eric; Cornillot, Emmanuel

FT-GPI, a highly sensitive and accurate predictor of GPI-anchored proteins, reveals the composition and evolution of the GPI proteome in Plasmodium species Journal Article

In: Malaria Journal, vol. 22, no. 1, pp. 27-46, 2023, ISBN: 1475-2875.

Abstract | Links | BibTeX | Tags: Misc

40.

Kang, Xiongbin; Xu, Jialu; Luo, Xiao; Schönhuth, Alexander

Hybrid-hybrid correction of errors in long reads with HERO Journal Article

In: Genome Biol., vol. 24, no. 1, pp. 275, 2023, ISBN: 1474-760X.

Abstract | Links | BibTeX | Tags: WP1: Primary CPG

121 entries « 2 of 7 »