Bioinformatics and Information Retrieval Data Structures Analysis and Design

Rezultaty

Integration report.

Final report of WP4, including a survey on the literature previous to this project, advances done and source code of new algorithms and data structures designed during the lifetime of the project for network analysis.

Quality management plan
Benchmark and test report

Benchmark and test report.

Kick-Off Meeting documentation
Final report of WP6

Final dissemination report including all demonstration activities, publications, reports on workshops and summer schools, teaching material, brochures, etc., involved in this working package

Final report of WP2

Final report of WP2, including a survey on the literature previous to this project, advances done and source code of new algorithms and data structures designed during the lifetime of the project for sequence analysis.

Final report of WP3

Final report of WP3, including a survey on the literature previous to this project, advances done and source code of new algorithms and data structures designed during the lifetime of the project for compression and indexing repetitive data.

Prototypes WP5

Prototypes of integrated research.

Publikacje

Run Compressed Rank/Select for Large Alphabets

Autorzy: Jose Fuentes-Sepulveda, Juha Karkkainen, Dmitry Kosolobov, Simon Puglisi
Opublikowane w: 2018 Data Compression Conference, 2018, Strona(/y) 315-324, ISBN 978-1-5386-4883-4
Wydawca: IEEE
DOI: 10.1109/dcc.2018.00040

Exploiting Computation-Friendly Graph Compression Methods for Adjacency-Matrix Multiplication

Autorzy: Alexandre Francisco, Travis Gagie, Susana Ladra, Gonzalo Navarro
Opublikowane w: 2018 Data Compression Conference, 2018, Strona(/y) 307-314, ISBN 978-1-5386-4883-4
Wydawca: IEEE
DOI: 10.1109/dcc.2018.00039

Navigational Rule Derivation: an Algorithm to Determine the Effect of Traffic Signs on Road Networks

Autorzy: Daniil Galaktionov, Miguel R. Luaces, Ángeles S. Places
Opublikowane w: Proceeding of the 20th Pacific Asia Conference on Information Systems, Numer PACIS 2016, 2016, Strona(/y) Paper 94, ISBN 9789-860491029
Wydawca: Association for Information Systems. AIS Electronic Library (AISeL)

A New Method to Index and Store Spatio-Temporal Data

Autorzy: Guillermo de Bernardo, Ramón Casares, Adrián Gómez-Brandón, José R. Paramá
Opublikowane w: Proceeding of the 20th Pacific Asia Conference on Information Systems, Numer PACIS 2016, 2016, Strona(/y) Paper 93, ISBN 9789-860491029
Wydawca: Association for Information Systems. AIS Electronic Library (AISeL)

Two-Dimensional Block Trees

Autorzy: Nieves R. Brisaboa, Travis Gagie, Adrian Gomez-Brandon, Gonzalo Navarro
Opublikowane w: 2018 Data Compression Conference, 2018, Strona(/y) 227-236, ISBN 978-1-5386-4883-4
Wydawca: IEEE
DOI: 10.1109/dcc.2018.00031

Compact Representations of Event Sequences

Autorzy: Nieves R. Brisaboa, Guillermo de Bernardo, Gonzalo Navarro, Tirso V. Rodeiro, Diego Seco
Opublikowane w: 2018 Data Compression Conference, 2018, Strona(/y) 237-246, ISBN 978-1-5386-4883-4
Wydawca: IEEE
DOI: 10.1109/dcc.2018.00032

About BIRDS project (Bioinformatics and Information Retrieval Data Structures Analysis and Design)

Autorzy: Guillermo de Bernardo, Susana Ladra
Opublikowane w: Proceedings of the 5th Spanish Conference on Information Retrieval - CERI '18, 2018, Strona(/y) 1-4, ISBN 9781-450365437
Wydawca: ACM Press
DOI: 10.1145/3230599.3230602

Non-Overlapping Indexing - Cache Obliviously

Autorzy: Sahar Hooshmand, Paniz Abedin, M. Oguzhan Külekci, Sharma V. Thankachan
Opublikowane w: Annual Symposium on Combinatorial Pattern Matching (CPM 2018), 2018, Strona(/y) 8:1--8:9, ISBN 978-3-95977-074-3
Wydawca: Schloss Dagstuhl--Leibniz-Zentrum fuer Informatik
DOI: 10.4230/lipics.cpm.2018.8

Integrating the common variability language with multilanguage annotations for web engineering

Autorzy: Jose-Miguel Horcas, Alejandro Cortiñas, Lidia Fuentes, Miguel R. Luaces
Opublikowane w: Proceeedings of the 22nd International Conference on Systems and Software Product Line - SPLC '18, 2018, Strona(/y) 196-207, ISBN 9781-450364645
Wydawca: ACM Press
DOI: 10.1145/3233027.3233049

On the Hardness and Inapproximability of Recognizing Wheeler Graphs

Autorzy: Daniel Gibney, Sharma V. Thankachan
Opublikowane w: 27th Annual European Symposium on Algorithms (ESA 2019), 2019, Strona(/y) 51:1--51:16
Wydawca: Schloss Dagstuhl--Leibniz-Zentrum fuer Informatik
DOI: 10.4230/lipics.esa.2019.51

Parallel Optimization of Fiber Bundle Segmentation for Massive Tractography Datasets

Autorzy: Andrea Vazquez, Narciso Lopez-Lopez, Nicole Labra, Miguel Figueroa, Cyril Poupon, Jean-Francois Mangin, Cecilia Hernandez, Pamela Guevara
Opublikowane w: 2019 IEEE 16th International Symposium on Biomedical Imaging (ISBI 2019), 2019, Strona(/y) 178-181, ISBN 978-1-5386-3641-1
Wydawca: IEEE
DOI: 10.1109/isbi.2019.8759208

Simulating the DNA Overlap Graph in Succinct Space

Autorzy: Diego Díaz-Domínguez, Travis Gagie, Gonzalo Navarro
Opublikowane w: 30th Annual Symposium on Combinatorial Pattern Matching (CPM 2019), 2019, Strona(/y) 26:1--26:20
Wydawca: Schloss Dagstuhl--Leibniz-Zentrum fuer Informatik
DOI: 10.4230/lipics.cpm.2019.26

A Compact Representation of Raster Time Series

Autorzy: Nataly Cruces, Diego Seco, Gilberto Guiterrez
Opublikowane w: 2019 Data Compression Conference (DCC), 2019, Strona(/y) 103-111, ISBN 978-1-7281-0657-1
Wydawca: IEEE
DOI: 10.1109/dcc.2019.00018

Dv2v: A Dynamic Variable-to-Variable Compressor

Autorzy: Nieves R. Brisaboa, Antonio Farina, Adrian Gomez-Brandon, Gonzalo Navarro, Tirso V. Rodeiro
Opublikowane w: 2019 Data Compression Conference (DCC), 2019, Strona(/y) 83-92, ISBN 978-1-7281-0657-1
Wydawca: IEEE
DOI: 10.1109/dcc.2019.00016

Tunneling on Wheeler Graphs

Autorzy: Jarno Alanko, Travis Gagie, Gonzalo Navarro, Louisa Seelbach Benkner
Opublikowane w: 2019 Data Compression Conference (DCC), 2019, Strona(/y) 122-131, ISBN 978-1-7281-0657-1
Wydawca: IEEE
DOI: 10.1109/dcc.2019.00020

Improved Compressed String Dictionaries

Autorzy: Nieves R. Brisaboa, Ana Cerdeira-Pena, Guillermo de Bernardo, Gonzalo Navarro
Opublikowane w: Proceedings of the 28th ACM International Conference on Information and Knowledge Management - CIKM '19, 2019, Strona(/y) 29-38, ISBN 9781-450369763
Wydawca: ACM Press
DOI: 10.1145/3357384.3357972

Order-Preserving Pattern Matching Indeterminate Strings

Autorzy: Rui Henriques, Alexandre P. Francisco, Luís M. S. Russo, Hideo Bannai
Opublikowane w: Annual Symposium on Combinatorial Pattern Matching (CPM 2018), Numer 2:1--2:15, 2018
Wydawca: Schloss Dagstuhl--Leibniz-Zentrum fuer Informatik
DOI: 10.4230/lipics.cpm.2018.2

Cortical surface parcellation based on intra-subject white matter fiber clustering

Autorzy: Narciso Lopez-Lopez, Andrea Vazquez, Cyril Poupon, Jean-Francois Mangin, Pamela Guevara
Opublikowane w: 2019 IEEE CHILEAN Conference on Electrical, Electronics Engineering, Information and Communication Technologies (CHILECON), 2019, Strona(/y) 1-6, ISBN 978-1-7281-3185-6
Wydawca: IEEE
DOI: 10.1109/chilecon47746.2019.8988066

Bitvectors with runs and the successor/predecessor problem

Autorzy: Adrián Gómez-Brandón
Opublikowane w: 2020 Data Compression Conference, 2020
Wydawca: IEEE

Revisiting compact RDF stores based on k2-trees

Autorzy: Nieves R. Brisaboa, Ana Cerdeira-Pena, Guillermo de Bernardo, Antonio Fariña
Opublikowane w: 2020 Data Compression Conference, 2020
Wydawca: IEEE

On dynamic succinct graph representations

Autorzy: Miguel E. Coimbra, Alexandre P. Francisco, Luís M. S. Russo, Guillermo de Bernardo, Susana Ladra, Gonzalo Navarro
Opublikowane w: 2020 Data Compression Conference, 2020
Wydawca: IEEE

Semantrix: A Compressed Semantic Matrix

Autorzy: Nieves R. Brisaboa, Antonio Fariña, Gonzalo Navarro, Tirso V. Rodeiro
Opublikowane w: 2020 Data Compression Conference, 2020
Wydawca: IEEE

Approximating Optimal Bidirectional Macro Schemes

Autorzy: Luís M. S. Russo, Ana D. Correia, Gonzalo Navarro, Alexandre P. Francisco
Opublikowane w: 2020 Data Compression Conference, 2020
Wydawca: IEEE

Pivot Selection for Median String Problem

Autorzy: Pedro Mirabal, Jose Abreu, Oscar Pedreira
Opublikowane w: 2019 38th International Conference of the Chilean Computer Science Society (SCCC), 2019, Strona(/y) 1-5, ISBN 978-1-7281-5613-2
Wydawca: IEEE
DOI: 10.1109/sccc49216.2019.8966441

Efficient Compression and Indexing of Trajectories

Autorzy: Nieves R. Brisaboa, Travis Gagie, Adrián Gómez-Brandón, Gonzalo Navarro, José R. Paramá
Opublikowane w: Procs. of 24th International Symposium on String Processing and Information Retrieval, Numer SPIRE 2017, 2017, Strona(/y) 103-115, ISBN 978-3-319-67427-8
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-319-67428-5_10

Fast and Compact Planar Embeddings

Autorzy: Leo Ferres, José Fuentes, Travis Gagie, Meng He, Gonzalo Navarro
Opublikowane w: Algorithms and Data Structures Symposium, Numer WADS 2017, 2017, Strona(/y) 385-396, ISBN 978-3-319-62126-5
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-319-62127-2_33

Optimal Omnitig Listing for Safe and Complete Contig Assembly

Autorzy: Massimo Cairo, Paul Medvedev, Nidia Obscura Acosta, Romeo Rizzi, Alexandru Tomescu
Opublikowane w: Procs. 28th Annual Symposium on Combinatorial Pattern Matching, Numer CPM 2017, 2017, Strona(/y) 29:1--29:12, ISBN 978-3-95977-039-2
Wydawca: Schloss Dagstuhl - Leibniz-Zentrum fuer Informatik
DOI: 10.4230/LIPIcs.CPM.2017.29

Parallel construction of wavelet trees on multicore architectures

Autorzy: José Fuentes-Sepúlveda, Erick Elejalde, Leo Ferres, Diego Seco
Opublikowane w: Knowledge and Information Systems, 2016, ISSN 0219-1377
Wydawca: Springer Verlag
DOI: 10.1007/s10115-016-1000-6

Aggregated 2D range queries on clustered points

Autorzy: Nieves R. Brisaboa, Guillermo De Bernardo, Roberto Konow, Gonzalo Navarro, Diego Seco
Opublikowane w: Information Systems, Numer 60, 2016, Strona(/y) 34-49, ISSN 0306-4379
Wydawca: Elsevier Science & Technology
DOI: 10.1016/j.is.2016.03.004

Universal indexes for highly repetitive document collections

Autorzy: Francisco Claude, Antonio Fariña, Miguel A. Martínez-Prieto, Gonzalo Navarro
Opublikowane w: Information Systems, Numer 61, 2016, Strona(/y) 1-23, ISSN 0306-4379
Wydawca: Elsevier Science & Technology
DOI: 10.1016/j.is.2016.04.002

Linking and Cutting Spanning Trees

Autorzy: Luís M. S. Russo, Andreia Teixeira, Alexandre Francisco
Opublikowane w: Algorithms, Numer 11/4, 2018, Strona(/y) 53, ISSN 1999-4893
Wydawca: MDPI Open Access Publishing
DOI: 10.3390/a11040053

A compact representation for trips over networks built on self-indexes

Autorzy: Nieves R. Brisaboa, Antonio Fariña, Daniil Galaktionov, M. Andrea Rodriguez
Opublikowane w: Information Systems, Numer 78, 2018, Strona(/y) 1-22, ISSN 0306-4379
Wydawca: Elsevier Science & Technology
DOI: 10.1016/j.is.2018.06.010

Using Compressed Suffix-Arrays for a compact representation of temporal-graphs

Autorzy: Nieves R. Brisaboa, Diego Caro, Antonio Fariña, M. Andrea Rodriguez
Opublikowane w: Information Sciences, Numer 465, 2018, Strona(/y) 459-483, ISSN 0020-0255
Wydawca: Elsevier BV
DOI: 10.1016/j.ins.2018.07.023

Design of Mutation Operators for Testing Geographic Information Systems

Autorzy: Suilen H. Alvarado
Opublikowane w: Proceedings, Numer 21/1, 2019, Strona(/y) 43, ISSN 2504-3900
Wydawca: MDPI
DOI: 10.3390/proceedings2019021043

Cell cycle and protein complex dynamics in discovering signaling pathways

Autorzy: Daniel Inostroza, Cecilia Hernández, Diego Seco, Gonzalo Navarro, Alvaro Olivera-Nappa
Opublikowane w: Journal of Bioinformatics and Computational Biology, Numer 17/03, 2019, Strona(/y) 1950011, ISSN 0219-7200
Wydawca: Imperial College Press
DOI: 10.1142/s0219720019500112

A study on splay trees

Autorzy: Luís M.S. Russo
Opublikowane w: Theoretical Computer Science, Numer 776, 2019, Strona(/y) 1-18, ISSN 0304-3975
Wydawca: Elsevier BV
DOI: 10.1016/j.tcs.2018.12.020

On the reproducibility of experiments of indexing repetitive document collections

Autorzy: Antonio Fariña, Miguel A. Martínez-Prieto, Francisco Claude, Gonzalo Navarro, Juan J. Lastra-Díaz, Nicola Prezza, Diego Seco
Opublikowane w: Information Systems, Numer 83, 2019, Strona(/y) 181-194, ISSN 0306-4379
Wydawca: Elsevier Science & Technology
DOI: 10.1016/j.is.2019.03.007

GraCT: A Grammar-based Compressed Index for Trajectory Data

Autorzy: Nieves R. Brisaboa, Adrián Gómez-Brandón, Gonzalo Navarro, José R. Paramá
Opublikowane w: Information Sciences, Numer 483, 2019, Strona(/y) 106-135, ISSN 0020-0255
Wydawca: Elsevier BV
DOI: 10.1016/j.ins.2019.01.035

Compact and efficient representation of general graph databases

Autorzy: Sandra Álvarez-García, Borja Freire, Susana Ladra, Óscar Pedreira
Opublikowane w: Knowledge and Information Systems, Numer 60/3, 2019, Strona(/y) 1479-1510, ISSN 0219-1377
Wydawca: Springer Verlag
DOI: 10.1007/s10115-018-1275-x

Energy Consumption in Compact Integer Vectors: A Study Case

Autorzy: Jose Fuentes-Sepulveda, Susana Ladra
Opublikowane w: IEEE Access, Numer 7, 2019, Strona(/y) 155625-155636, ISSN 2169-3536
Wydawca: Institute of Electrical and Electronics Engineers Inc.
DOI: 10.1109/ACCESS.2019.2949655

Assessing the best edit in perturbation-based iterative refinement algorithms to compute the median string

Autorzy: P. Mirabal, J. Abreu, D. Seco
Opublikowane w: Pattern Recognition Letters, Numer 120, 2019, Strona(/y) 104-111, ISSN 0167-8655
Wydawca: Elsevier BV
DOI: 10.1016/j.patrec.2019.02.004

Efficient processing of raster and vector data

Autorzy: Fernando Silva-Coira, José R. Paramá, Susana Ladra, Juan R. López, Gilberto Gutiérrez
Opublikowane w: PLOS ONE, Numer 15/1, 2020, Strona(/y) e0226943, ISSN 1932-6203
Wydawca: Public Library of Science
DOI: 10.1371/journal.pone.0226943

Document retrieval on repetitive string collections

Autorzy: Travis Gagie, Aleksi Hartikainen, Kalle Karhu, Juha Kärkkäinen, Gonzalo Navarro, Simon J. Puglisi, Jouni Sirén
Opublikowane w: Information Retrieval Journal, Numer 20/3, 2017, Strona(/y) 253-291, ISSN 1386-4564
Wydawca: Kluwer Academic Publishers
DOI: 10.1007/s10791-017-9297-7

A succinct data structure for self-indexing ternary relations

Autorzy: Sandra Alvarez-Garcia, Guillermo de Bernardo, Nieves R. Brisaboa, Gonzalo Navarro
Opublikowane w: Journal of Discrete Algorithms, Numer 43, 2017, Strona(/y) 38-53, ISSN 1570-8667
Wydawca: Elsevier BV
DOI: 10.1016/j.jda.2016.10.002

Grammar compressed sequences with rank/select support

Autorzy: Alberto Ordóñez, Gonzalo Navarro, Nieves R. Brisaboa
Opublikowane w: Journal of Discrete Algorithms, Numer 43, 2017, Strona(/y) 54-71, ISSN 1570-8667
Wydawca: Elsevier BV
DOI: 10.1016/j.jda.2016.10.001

Compressed representation of dynamic binary relations with applications

Autorzy: Nieves R. Brisaboa, Ana Cerdeira-Pena, Guillermo de Bernardo, Gonzalo Navarro
Opublikowane w: Information Systems, Numer 69, 2017, Strona(/y) 106-123, ISSN 0306-4379
Wydawca: Elsevier Science & Technology
DOI: 10.1016/j.is.2017.05.003

Compact Trip Representation over Networks

Autorzy: Nieves R. Brisaboa, Antonio Fariña, Daniil Galaktionov, M. Andrea Rodríguez
Opublikowane w: String Processing and Information Retrieval, 2016, Strona(/y) 240-253, ISBN 978-3-319-46049-9
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-319-46049-9_23

Efficient Representation of Multidimensional Data over Hierarchical Domains

Autorzy: Nieves R. Brisaboa, Ana Cerdeira-Pena, Narciso López-López, Gonzalo Navarro, Miguel R. Penabad, Fernando Silva-Coira
Opublikowane w: String Processing and Information Retrieval, 2016, Strona(/y) 191-203, ISBN 978-3-319-46049-9
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-319-46049-9_19

GraCT: A Grammar Based Compressed Representation of Trajectories

Autorzy: Nieves R. Brisaboa, Adrián Gómez-Brandón, Gonzalo Navarro, José R. Paramá
Opublikowane w: String Processing and Information Retrieval, 2016, Strona(/y) 218-230, ISBN 978-3-319-46049-9
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-319-46049-9_21

Efficient and Compact Representations of Some Non-canonical Prefix-Free Codes

Autorzy: Antonio Fariña, Travis Gagie, Giovanni Manzini, Gonzalo Navarro, Alberto Ordóñez
Opublikowane w: String Processing and Information Retrieval, 2016, Strona(/y) 50-60, ISBN 978-3-319-46049-9
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-319-46049-9_5

A Case Study on Visualizing Large Spatial Datasets in a Web-Based Map Viewer

Autorzy: Alejandro Cortiñas, Miguel R. Luaces, Tirso V. Rodeiro
Opublikowane w: Web Engineering, Numer 10845, 2018, Strona(/y) 296-303, ISBN 978-3-319-91661-3
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-319-91662-0_23

Faster and Smaller Two-Level Index for Network-Based Trajectories

Autorzy: Rodrigo Rivera, M. Andrea Rodríguez, Diego Seco
Opublikowane w: String Processing and Information Retrieval - 25th International Symposium, SPIRE 2018, Lima, Peru, October 9-11, 2018, Proceedings, Numer 11147, 2018, Strona(/y) 348-362, ISBN 978-3-030-00478-1
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-030-00479-8_28

Towards a Compact Representation of Temporal Rasters

Autorzy: Ana Cerdeira-Pena, Guillermo de Bernardo, Antonio Fariña, José Ramón Paramá, Fernando Silva-Coira
Opublikowane w: String Processing and Information Retrieval - 25th International Symposium, SPIRE 2018, Lima, Peru, October 9-11, 2018, Proceedings, Numer 11147, 2018, Strona(/y) 117-130, ISBN 978-3-030-00478-1
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-030-00479-8_10

3DGraCT: A Grammar-Based Compressed Representation of 3D Trajectories

Autorzy: Nieves R. Brisaboa, Adrián Gómez-Brandón, Miguel A. Martínez-Prieto, José Ramón Paramá
Opublikowane w: String Processing and Information Retrieval - 25th International Symposium, SPIRE 2018, Lima, Peru, October 9-11, 2018, Proceedings, Numer 11147, 2018, Strona(/y) 102-116, ISBN 978-3-030-00478-1
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-030-00479-8_9

New Structures to Solve Aggregated Queries for Trips over Public Transportation Networks

Autorzy: Nieves R. Brisaboa, Antonio Fariña, Daniil Galaktionov, Tirso V. Rodeiro, M. Andrea Rodríguez
Opublikowane w: String Processing and Information Retrieval - 25th International Symposium, SPIRE 2018, Lima, Peru, October 9-11, 2018, Proceedings, Numer 11147, 2018, Strona(/y) 88-101, ISBN 978-3-030-00478-1
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-030-00479-8_8

Faster Dynamic Compressed d-ary Relations

Autorzy: Diego Arroyuelo, Guillermo de Bernardo, Travis Gagie, Gonzalo Navarro
Opublikowane w: String Processing and Information Retrieval - 26th International Symposium, SPIRE 2019, Segovia, Spain, October 7–9, 2019, Proceedings, Numer 11811, 2019, Strona(/y) 419-433, ISBN 978-3-030-32685-2
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-030-32686-9_30

Space- and Time-Efficient Storage of LiDAR Point Clouds

Autorzy: Susana Ladra, Miguel R. Luaces, José R. Paramá, Fernando Silva-Coira
Opublikowane w: String Processing and Information Retrieval - 26th International Symposium, SPIRE 2019, Segovia, Spain, October 7–9, 2019, Proceedings, Numer 11811, 2019, Strona(/y) 513-527, ISBN 978-3-030-32685-2
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-030-32686-9_36

Implementing the Topological Model Succinctly

Autorzy: José Fuentes-Sepúlveda, Gonzalo Navarro, Diego Seco
Opublikowane w: String Processing and Information Retrieval - 26th International Symposium, SPIRE 2019, Segovia, Spain, October 7–9, 2019, Proceedings, Numer 11811, 2019, Strona(/y) 499-512, ISBN 978-3-030-32685-2
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-030-32686-9_35

An Index for Sequencing Reads Based on the Colored de Bruijn Graph

Autorzy: Diego Díaz-Domínguez
Opublikowane w: String Processing and Information Retrieval - 26th International Symposium, SPIRE 2019, Segovia, Spain, October 7–9, 2019, Proceedings, Numer 11811, 2019, Strona(/y) 304-321, ISBN 978-3-030-32685-2
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-030-32686-9_22

Fast Indexes for Gapped Pattern Matching

Autorzy: Manuel Cáceres, Simon J. Puglisi, Bella Zhukova
Opublikowane w: SOFSEM 2020: Theory and Practice of Computer Science - 46th International Conference on Current Trends in Theory and Practice of Informatics, SOFSEM 2020, Limassol, Cyprus, January 20–24, 2020, Proceedings, Numer 12011, 2020, Strona(/y) 493-504, ISBN 978-3-030-38918-5
Wydawca: Springer International Publishing
DOI: 10.1007/978-3-030-38919-2_40

An Experiment in Learning the Language of Sequence Motifs: Sequence Logos vs. Finite-State Machines

Autorzy: Gagie, Travis; Kempa, Dominik; Salmela, Leena; Sverdlov, Sophie; Toivonen, Jarkko; Ukkonen, Esko; Francisco, Alexandre
Opublikowane w: Numer 14, 2017
Wydawca: bioRxiv
DOI: 10.1101/143024

Lempel-Ziv-like Parsing in Small Space

Autorzy: Valenzuela, Daniel; Kosolobov, Dmitry; Navarro, Gonzalo; Puglisi, Simon J.
Opublikowane w: 2019
Wydawca: arxiv

Assembling Omnitigs using Hidden-Order de Bruijn Graphs

Autorzy: Díaz-Domínguez, Diego; Belazzougui, Djamal; Gagie, Travis; Mäkinen, Veli; Navarro, Gonzalo; Puglisi, Simon J.
Opublikowane w: 2019
Wydawca: arxiv

Compressed data structures for trajectory representation

Autorzy: Daniil Galaktionov
Opublikowane w: 2020
Wydawca: Universidade da Coruña

Compact data structures for large and complex datasets

Autorzy: Fernando Silva-Coira
Opublikowane w: 2017
Wydawca: University of A Coruña

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