Bioinformatics and Information Retrieval Data Structures Analysis and Design

Risultati finali

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.

Pubblicazioni

Run Compressed Rank/Select for Large Alphabets

Autori: Jose Fuentes-Sepulveda, Juha Karkkainen, Dmitry Kosolobov, Simon Puglisi
Pubblicato in: 2018 Data Compression Conference, 2018, Pagina/e 315-324, ISBN 978-1-5386-4883-4
Editore: IEEE
DOI: 10.1109/dcc.2018.00040

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

Autori: Alexandre Francisco, Travis Gagie, Susana Ladra, Gonzalo Navarro
Pubblicato in: 2018 Data Compression Conference, 2018, Pagina/e 307-314, ISBN 978-1-5386-4883-4
Editore: IEEE
DOI: 10.1109/dcc.2018.00039

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

Autori: Daniil Galaktionov, Miguel R. Luaces, Ángeles S. Places
Pubblicato in: Proceeding of the 20th Pacific Asia Conference on Information Systems, Numero PACIS 2016, 2016, Pagina/e Paper 94, ISBN 9789-860491029
Editore: Association for Information Systems. AIS Electronic Library (AISeL)

A New Method to Index and Store Spatio-Temporal Data

Autori: Guillermo de Bernardo, Ramón Casares, Adrián Gómez-Brandón, José R. Paramá
Pubblicato in: Proceeding of the 20th Pacific Asia Conference on Information Systems, Numero PACIS 2016, 2016, Pagina/e Paper 93, ISBN 9789-860491029
Editore: Association for Information Systems. AIS Electronic Library (AISeL)

Two-Dimensional Block Trees

Autori: Nieves R. Brisaboa, Travis Gagie, Adrian Gomez-Brandon, Gonzalo Navarro
Pubblicato in: 2018 Data Compression Conference, 2018, Pagina/e 227-236, ISBN 978-1-5386-4883-4
Editore: IEEE
DOI: 10.1109/dcc.2018.00031

Compact Representations of Event Sequences

Autori: Nieves R. Brisaboa, Guillermo de Bernardo, Gonzalo Navarro, Tirso V. Rodeiro, Diego Seco
Pubblicato in: 2018 Data Compression Conference, 2018, Pagina/e 237-246, ISBN 978-1-5386-4883-4
Editore: IEEE
DOI: 10.1109/dcc.2018.00032

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

Autori: Guillermo de Bernardo, Susana Ladra
Pubblicato in: Proceedings of the 5th Spanish Conference on Information Retrieval - CERI '18, 2018, Pagina/e 1-4, ISBN 9781-450365437
Editore: ACM Press
DOI: 10.1145/3230599.3230602

Non-Overlapping Indexing - Cache Obliviously

Autori: Sahar Hooshmand, Paniz Abedin, M. Oguzhan Külekci, Sharma V. Thankachan
Pubblicato in: Annual Symposium on Combinatorial Pattern Matching (CPM 2018), 2018, Pagina/e 8:1--8:9, ISBN 978-3-95977-074-3
Editore: Schloss Dagstuhl--Leibniz-Zentrum fuer Informatik
DOI: 10.4230/lipics.cpm.2018.8

Integrating the common variability language with multilanguage annotations for web engineering

Autori: Jose-Miguel Horcas, Alejandro Cortiñas, Lidia Fuentes, Miguel R. Luaces
Pubblicato in: Proceeedings of the 22nd International Conference on Systems and Software Product Line - SPLC '18, 2018, Pagina/e 196-207, ISBN 9781-450364645
Editore: ACM Press
DOI: 10.1145/3233027.3233049

On the Hardness and Inapproximability of Recognizing Wheeler Graphs

Autori: Daniel Gibney, Sharma V. Thankachan
Pubblicato in: 27th Annual European Symposium on Algorithms (ESA 2019), 2019, Pagina/e 51:1--51:16
Editore: Schloss Dagstuhl--Leibniz-Zentrum fuer Informatik
DOI: 10.4230/lipics.esa.2019.51

Parallel Optimization of Fiber Bundle Segmentation for Massive Tractography Datasets

Autori: Andrea Vazquez, Narciso Lopez-Lopez, Nicole Labra, Miguel Figueroa, Cyril Poupon, Jean-Francois Mangin, Cecilia Hernandez, Pamela Guevara
Pubblicato in: 2019 IEEE 16th International Symposium on Biomedical Imaging (ISBI 2019), 2019, Pagina/e 178-181, ISBN 978-1-5386-3641-1
Editore: IEEE
DOI: 10.1109/isbi.2019.8759208

Simulating the DNA Overlap Graph in Succinct Space

Autori: Diego Díaz-Domínguez, Travis Gagie, Gonzalo Navarro
Pubblicato in: 30th Annual Symposium on Combinatorial Pattern Matching (CPM 2019), 2019, Pagina/e 26:1--26:20
Editore: Schloss Dagstuhl--Leibniz-Zentrum fuer Informatik
DOI: 10.4230/lipics.cpm.2019.26

A Compact Representation of Raster Time Series

Autori: Nataly Cruces, Diego Seco, Gilberto Guiterrez
Pubblicato in: 2019 Data Compression Conference (DCC), 2019, Pagina/e 103-111, ISBN 978-1-7281-0657-1
Editore: IEEE
DOI: 10.1109/dcc.2019.00018

Dv2v: A Dynamic Variable-to-Variable Compressor

Autori: Nieves R. Brisaboa, Antonio Farina, Adrian Gomez-Brandon, Gonzalo Navarro, Tirso V. Rodeiro
Pubblicato in: 2019 Data Compression Conference (DCC), 2019, Pagina/e 83-92, ISBN 978-1-7281-0657-1
Editore: IEEE
DOI: 10.1109/dcc.2019.00016

Tunneling on Wheeler Graphs

Autori: Jarno Alanko, Travis Gagie, Gonzalo Navarro, Louisa Seelbach Benkner
Pubblicato in: 2019 Data Compression Conference (DCC), 2019, Pagina/e 122-131, ISBN 978-1-7281-0657-1
Editore: IEEE
DOI: 10.1109/dcc.2019.00020

Improved Compressed String Dictionaries

Autori: Nieves R. Brisaboa, Ana Cerdeira-Pena, Guillermo de Bernardo, Gonzalo Navarro
Pubblicato in: Proceedings of the 28th ACM International Conference on Information and Knowledge Management - CIKM '19, 2019, Pagina/e 29-38, ISBN 9781-450369763
Editore: ACM Press
DOI: 10.1145/3357384.3357972

Order-Preserving Pattern Matching Indeterminate Strings

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

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

Autori: Narciso Lopez-Lopez, Andrea Vazquez, Cyril Poupon, Jean-Francois Mangin, Pamela Guevara
Pubblicato in: 2019 IEEE CHILEAN Conference on Electrical, Electronics Engineering, Information and Communication Technologies (CHILECON), 2019, Pagina/e 1-6, ISBN 978-1-7281-3185-6
Editore: IEEE
DOI: 10.1109/chilecon47746.2019.8988066

Bitvectors with runs and the successor/predecessor problem

Autori: Adrián Gómez-Brandón
Pubblicato in: 2020 Data Compression Conference, 2020
Editore: IEEE

Revisiting compact RDF stores based on k2-trees

Autori: Nieves R. Brisaboa, Ana Cerdeira-Pena, Guillermo de Bernardo, Antonio Fariña
Pubblicato in: 2020 Data Compression Conference, 2020
Editore: IEEE

On dynamic succinct graph representations

Autori: Miguel E. Coimbra, Alexandre P. Francisco, Luís M. S. Russo, Guillermo de Bernardo, Susana Ladra, Gonzalo Navarro
Pubblicato in: 2020 Data Compression Conference, 2020
Editore: IEEE

Semantrix: A Compressed Semantic Matrix

Autori: Nieves R. Brisaboa, Antonio Fariña, Gonzalo Navarro, Tirso V. Rodeiro
Pubblicato in: 2020 Data Compression Conference, 2020
Editore: IEEE

Approximating Optimal Bidirectional Macro Schemes

Autori: Luís M. S. Russo, Ana D. Correia, Gonzalo Navarro, Alexandre P. Francisco
Pubblicato in: 2020 Data Compression Conference, 2020
Editore: IEEE

Pivot Selection for Median String Problem

Autori: Pedro Mirabal, Jose Abreu, Oscar Pedreira
Pubblicato in: 2019 38th International Conference of the Chilean Computer Science Society (SCCC), 2019, Pagina/e 1-5, ISBN 978-1-7281-5613-2
Editore: IEEE
DOI: 10.1109/sccc49216.2019.8966441

Efficient Compression and Indexing of Trajectories

Autori: Nieves R. Brisaboa, Travis Gagie, Adrián Gómez-Brandón, Gonzalo Navarro, José R. Paramá
Pubblicato in: Procs. of 24th International Symposium on String Processing and Information Retrieval, Numero SPIRE 2017, 2017, Pagina/e 103-115, ISBN 978-3-319-67427-8
Editore: Springer International Publishing
DOI: 10.1007/978-3-319-67428-5_10

Fast and Compact Planar Embeddings

Autori: Leo Ferres, José Fuentes, Travis Gagie, Meng He, Gonzalo Navarro
Pubblicato in: Algorithms and Data Structures Symposium, Numero WADS 2017, 2017, Pagina/e 385-396, ISBN 978-3-319-62126-5
Editore: Springer International Publishing
DOI: 10.1007/978-3-319-62127-2_33

Optimal Omnitig Listing for Safe and Complete Contig Assembly

Autori: Massimo Cairo, Paul Medvedev, Nidia Obscura Acosta, Romeo Rizzi, Alexandru Tomescu
Pubblicato in: Procs. 28th Annual Symposium on Combinatorial Pattern Matching, Numero CPM 2017, 2017, Pagina/e 29:1--29:12, ISBN 978-3-95977-039-2
Editore: Schloss Dagstuhl - Leibniz-Zentrum fuer Informatik
DOI: 10.4230/LIPIcs.CPM.2017.29

Parallel construction of wavelet trees on multicore architectures

Autori: José Fuentes-Sepúlveda, Erick Elejalde, Leo Ferres, Diego Seco
Pubblicato in: Knowledge and Information Systems, 2016, ISSN 0219-1377
Editore: Springer Verlag
DOI: 10.1007/s10115-016-1000-6

Aggregated 2D range queries on clustered points

Autori: Nieves R. Brisaboa, Guillermo De Bernardo, Roberto Konow, Gonzalo Navarro, Diego Seco
Pubblicato in: Information Systems, Numero 60, 2016, Pagina/e 34-49, ISSN 0306-4379
Editore: Elsevier Science & Technology
DOI: 10.1016/j.is.2016.03.004

Universal indexes for highly repetitive document collections

Autori: Francisco Claude, Antonio Fariña, Miguel A. Martínez-Prieto, Gonzalo Navarro
Pubblicato in: Information Systems, Numero 61, 2016, Pagina/e 1-23, ISSN 0306-4379
Editore: Elsevier Science & Technology
DOI: 10.1016/j.is.2016.04.002

Linking and Cutting Spanning Trees

Autori: Luís M. S. Russo, Andreia Teixeira, Alexandre Francisco
Pubblicato in: Algorithms, Numero 11/4, 2018, Pagina/e 53, ISSN 1999-4893
Editore: MDPI Open Access Publishing
DOI: 10.3390/a11040053

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

Autori: Nieves R. Brisaboa, Antonio Fariña, Daniil Galaktionov, M. Andrea Rodriguez
Pubblicato in: Information Systems, Numero 78, 2018, Pagina/e 1-22, ISSN 0306-4379
Editore: Elsevier Science & Technology
DOI: 10.1016/j.is.2018.06.010

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

Autori: Nieves R. Brisaboa, Diego Caro, Antonio Fariña, M. Andrea Rodriguez
Pubblicato in: Information Sciences, Numero 465, 2018, Pagina/e 459-483, ISSN 0020-0255
Editore: Elsevier BV
DOI: 10.1016/j.ins.2018.07.023

Design of Mutation Operators for Testing Geographic Information Systems

Autori: Suilen H. Alvarado
Pubblicato in: Proceedings, Numero 21/1, 2019, Pagina/e 43, ISSN 2504-3900
Editore: MDPI
DOI: 10.3390/proceedings2019021043

Cell cycle and protein complex dynamics in discovering signaling pathways

Autori: Daniel Inostroza, Cecilia Hernández, Diego Seco, Gonzalo Navarro, Alvaro Olivera-Nappa
Pubblicato in: Journal of Bioinformatics and Computational Biology, Numero 17/03, 2019, Pagina/e 1950011, ISSN 0219-7200
Editore: Imperial College Press
DOI: 10.1142/s0219720019500112

A study on splay trees

Autori: Luís M.S. Russo
Pubblicato in: Theoretical Computer Science, Numero 776, 2019, Pagina/e 1-18, ISSN 0304-3975
Editore: Elsevier BV
DOI: 10.1016/j.tcs.2018.12.020

On the reproducibility of experiments of indexing repetitive document collections

Autori: Antonio Fariña, Miguel A. Martínez-Prieto, Francisco Claude, Gonzalo Navarro, Juan J. Lastra-Díaz, Nicola Prezza, Diego Seco
Pubblicato in: Information Systems, Numero 83, 2019, Pagina/e 181-194, ISSN 0306-4379
Editore: Elsevier Science & Technology
DOI: 10.1016/j.is.2019.03.007

GraCT: A Grammar-based Compressed Index for Trajectory Data

Autori: Nieves R. Brisaboa, Adrián Gómez-Brandón, Gonzalo Navarro, José R. Paramá
Pubblicato in: Information Sciences, Numero 483, 2019, Pagina/e 106-135, ISSN 0020-0255
Editore: Elsevier BV
DOI: 10.1016/j.ins.2019.01.035

Compact and efficient representation of general graph databases

Autori: Sandra Álvarez-García, Borja Freire, Susana Ladra, Óscar Pedreira
Pubblicato in: Knowledge and Information Systems, Numero 60/3, 2019, Pagina/e 1479-1510, ISSN 0219-1377
Editore: Springer Verlag
DOI: 10.1007/s10115-018-1275-x

Energy Consumption in Compact Integer Vectors: A Study Case

Autori: Jose Fuentes-Sepulveda, Susana Ladra
Pubblicato in: IEEE Access, Numero 7, 2019, Pagina/e 155625-155636, ISSN 2169-3536
Editore: 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

Autori: P. Mirabal, J. Abreu, D. Seco
Pubblicato in: Pattern Recognition Letters, Numero 120, 2019, Pagina/e 104-111, ISSN 0167-8655
Editore: Elsevier BV
DOI: 10.1016/j.patrec.2019.02.004

Efficient processing of raster and vector data

Autori: Fernando Silva-Coira, José R. Paramá, Susana Ladra, Juan R. López, Gilberto Gutiérrez
Pubblicato in: PLOS ONE, Numero 15/1, 2020, Pagina/e e0226943, ISSN 1932-6203
Editore: Public Library of Science
DOI: 10.1371/journal.pone.0226943

Document retrieval on repetitive string collections

Autori: Travis Gagie, Aleksi Hartikainen, Kalle Karhu, Juha Kärkkäinen, Gonzalo Navarro, Simon J. Puglisi, Jouni Sirén
Pubblicato in: Information Retrieval Journal, Numero 20/3, 2017, Pagina/e 253-291, ISSN 1386-4564
Editore: Kluwer Academic Publishers
DOI: 10.1007/s10791-017-9297-7

A succinct data structure for self-indexing ternary relations

Autori: Sandra Alvarez-Garcia, Guillermo de Bernardo, Nieves R. Brisaboa, Gonzalo Navarro
Pubblicato in: Journal of Discrete Algorithms, Numero 43, 2017, Pagina/e 38-53, ISSN 1570-8667
Editore: Elsevier BV
DOI: 10.1016/j.jda.2016.10.002

Grammar compressed sequences with rank/select support

Autori: Alberto Ordóñez, Gonzalo Navarro, Nieves R. Brisaboa
Pubblicato in: Journal of Discrete Algorithms, Numero 43, 2017, Pagina/e 54-71, ISSN 1570-8667
Editore: Elsevier BV
DOI: 10.1016/j.jda.2016.10.001

Compressed representation of dynamic binary relations with applications

Autori: Nieves R. Brisaboa, Ana Cerdeira-Pena, Guillermo de Bernardo, Gonzalo Navarro
Pubblicato in: Information Systems, Numero 69, 2017, Pagina/e 106-123, ISSN 0306-4379
Editore: Elsevier Science & Technology
DOI: 10.1016/j.is.2017.05.003

Compact Trip Representation over Networks

Autori: Nieves R. Brisaboa, Antonio Fariña, Daniil Galaktionov, M. Andrea Rodríguez
Pubblicato in: String Processing and Information Retrieval, 2016, Pagina/e 240-253, ISBN 978-3-319-46049-9
Editore: Springer International Publishing
DOI: 10.1007/978-3-319-46049-9_23

Efficient Representation of Multidimensional Data over Hierarchical Domains

Autori: Nieves R. Brisaboa, Ana Cerdeira-Pena, Narciso López-López, Gonzalo Navarro, Miguel R. Penabad, Fernando Silva-Coira
Pubblicato in: String Processing and Information Retrieval, 2016, Pagina/e 191-203, ISBN 978-3-319-46049-9
Editore: Springer International Publishing
DOI: 10.1007/978-3-319-46049-9_19

GraCT: A Grammar Based Compressed Representation of Trajectories

Autori: Nieves R. Brisaboa, Adrián Gómez-Brandón, Gonzalo Navarro, José R. Paramá
Pubblicato in: String Processing and Information Retrieval, 2016, Pagina/e 218-230, ISBN 978-3-319-46049-9
Editore: Springer International Publishing
DOI: 10.1007/978-3-319-46049-9_21

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

Autori: Antonio Fariña, Travis Gagie, Giovanni Manzini, Gonzalo Navarro, Alberto Ordóñez
Pubblicato in: String Processing and Information Retrieval, 2016, Pagina/e 50-60, ISBN 978-3-319-46049-9
Editore: 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

Autori: Alejandro Cortiñas, Miguel R. Luaces, Tirso V. Rodeiro
Pubblicato in: Web Engineering, Numero 10845, 2018, Pagina/e 296-303, ISBN 978-3-319-91661-3
Editore: Springer International Publishing
DOI: 10.1007/978-3-319-91662-0_23

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

Autori: Rodrigo Rivera, M. Andrea Rodríguez, Diego Seco
Pubblicato in: String Processing and Information Retrieval - 25th International Symposium, SPIRE 2018, Lima, Peru, October 9-11, 2018, Proceedings, Numero 11147, 2018, Pagina/e 348-362, ISBN 978-3-030-00478-1
Editore: Springer International Publishing
DOI: 10.1007/978-3-030-00479-8_28

Towards a Compact Representation of Temporal Rasters

Autori: Ana Cerdeira-Pena, Guillermo de Bernardo, Antonio Fariña, José Ramón Paramá, Fernando Silva-Coira
Pubblicato in: String Processing and Information Retrieval - 25th International Symposium, SPIRE 2018, Lima, Peru, October 9-11, 2018, Proceedings, Numero 11147, 2018, Pagina/e 117-130, ISBN 978-3-030-00478-1
Editore: Springer International Publishing
DOI: 10.1007/978-3-030-00479-8_10

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

Autori: Nieves R. Brisaboa, Adrián Gómez-Brandón, Miguel A. Martínez-Prieto, José Ramón Paramá
Pubblicato in: String Processing and Information Retrieval - 25th International Symposium, SPIRE 2018, Lima, Peru, October 9-11, 2018, Proceedings, Numero 11147, 2018, Pagina/e 102-116, ISBN 978-3-030-00478-1
Editore: Springer International Publishing
DOI: 10.1007/978-3-030-00479-8_9

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

Autori: Nieves R. Brisaboa, Antonio Fariña, Daniil Galaktionov, Tirso V. Rodeiro, M. Andrea Rodríguez
Pubblicato in: String Processing and Information Retrieval - 25th International Symposium, SPIRE 2018, Lima, Peru, October 9-11, 2018, Proceedings, Numero 11147, 2018, Pagina/e 88-101, ISBN 978-3-030-00478-1
Editore: Springer International Publishing
DOI: 10.1007/978-3-030-00479-8_8

Faster Dynamic Compressed d-ary Relations

Autori: Diego Arroyuelo, Guillermo de Bernardo, Travis Gagie, Gonzalo Navarro
Pubblicato in: String Processing and Information Retrieval - 26th International Symposium, SPIRE 2019, Segovia, Spain, October 7–9, 2019, Proceedings, Numero 11811, 2019, Pagina/e 419-433, ISBN 978-3-030-32685-2
Editore: Springer International Publishing
DOI: 10.1007/978-3-030-32686-9_30

Space- and Time-Efficient Storage of LiDAR Point Clouds

Autori: Susana Ladra, Miguel R. Luaces, José R. Paramá, Fernando Silva-Coira
Pubblicato in: String Processing and Information Retrieval - 26th International Symposium, SPIRE 2019, Segovia, Spain, October 7–9, 2019, Proceedings, Numero 11811, 2019, Pagina/e 513-527, ISBN 978-3-030-32685-2
Editore: Springer International Publishing
DOI: 10.1007/978-3-030-32686-9_36

Implementing the Topological Model Succinctly

Autori: José Fuentes-Sepúlveda, Gonzalo Navarro, Diego Seco
Pubblicato in: String Processing and Information Retrieval - 26th International Symposium, SPIRE 2019, Segovia, Spain, October 7–9, 2019, Proceedings, Numero 11811, 2019, Pagina/e 499-512, ISBN 978-3-030-32685-2
Editore: Springer International Publishing
DOI: 10.1007/978-3-030-32686-9_35

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

Autori: Diego Díaz-Domínguez
Pubblicato in: String Processing and Information Retrieval - 26th International Symposium, SPIRE 2019, Segovia, Spain, October 7–9, 2019, Proceedings, Numero 11811, 2019, Pagina/e 304-321, ISBN 978-3-030-32685-2
Editore: Springer International Publishing
DOI: 10.1007/978-3-030-32686-9_22

Fast Indexes for Gapped Pattern Matching

Autori: Manuel Cáceres, Simon J. Puglisi, Bella Zhukova
Pubblicato in: 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, Numero 12011, 2020, Pagina/e 493-504, ISBN 978-3-030-38918-5
Editore: 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

Autori: Gagie, Travis; Kempa, Dominik; Salmela, Leena; Sverdlov, Sophie; Toivonen, Jarkko; Ukkonen, Esko; Francisco, Alexandre
Pubblicato in: Numero 14, 2017
Editore: bioRxiv
DOI: 10.1101/143024

Lempel-Ziv-like Parsing in Small Space

Autori: Valenzuela, Daniel; Kosolobov, Dmitry; Navarro, Gonzalo; Puglisi, Simon J.
Pubblicato in: 2019
Editore: arxiv

Assembling Omnitigs using Hidden-Order de Bruijn Graphs

Autori: Díaz-Domínguez, Diego; Belazzougui, Djamal; Gagie, Travis; Mäkinen, Veli; Navarro, Gonzalo; Puglisi, Simon J.
Pubblicato in: 2019
Editore: arxiv

Compressed data structures for trajectory representation

Autori: Daniil Galaktionov
Pubblicato in: 2020
Editore: Universidade da Coruña

Compact data structures for large and complex datasets

Autori: Fernando Silva-Coira
Pubblicato in: 2017
Editore: University of A Coruña

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