Romain Bourqui

Identifiants chercheurs

IdHAL :

romain-bourqui

ORCID :

0000-0002-1847-2589

IdRef :

13115947X

Publications

Article dans une revue (19)

Overlap Removal by Stochastic Gradient Descent with(out) Shape Awareness Loann Giovannangeli,Frédéric Lalanne,Romain Giot,Romain Bourqui IEEE Transactions on Visualization and Computer Graphics, 2024, pp.1-17. ⟨10.1109/TVCG.2024.3351479⟩ Article dans une revue hal-04404942v1
Guaranteed Visibility in Scatterplots with Tolerance Loann Giovannangeli,Frédéric Lalanne,Romain Giot,Romain Bourqui IEEE Transactions on Visualization and Computer Graphics, 2023, pp.1-11. ⟨10.1109/TVCG.2023.3326596⟩ Article dans une revue hal-04198637v1
State of the Art of Visual Analytics for eXplainable Deep Learning B. La Rosa,G. Blasilli,R. Bourqui,D. Auber,G. Santucciet al. Computer Graphics Forum, In press, ⟨10.1111/cgf.14733⟩ Article dans une revue hal-03980917v1
Color and Shape efficiency for outlier detection from automated to user evaluation Loann Giovannangeli,Romain Bourqui,Romain Giot,David Auber Visual Informatics, 2022, ⟨10.1016/j.visinf.2022.03.001⟩ Article dans une revue hal-03617222v1
Toward Efficient Deep Learning for Graph Drawing (DL4GD) Loann Giovannangeli,Frederic Lalanne,David Auber,Romain Giot,Romain Bourqui IEEE Transactions on Visualization and Computer Graphics, 2022, pp.1-16. ⟨10.1109/TVCG.2022.3222186⟩ Article dans une revue hal-03901281v1
GSAn: an alternative to enrichment analysis for annotating gene sets Aarón Ayllón-Benítez,Romain Bourqui,Patricia Thebault,Fleur Mougin NAR Genomics and Bioinformatics, 2020, 2 (2), ⟨10.1093/nargab/lqaa017⟩ Article dans une revue hal-02509842v1
Toward automatic comparison of visualization techniques: Application to graph visualization Loann Giovannangeli,Romain Bourqui,Romain Giot,David Auber Visual Informatics, 2020, 4 (2), pp.86-98. ⟨10.1016/j.visinf.2020.04.002⟩ Article dans une revue hal-02899895v1
HiePaCo: Scalable hierarchical exploration in abstract parallel coordinates under budget constraints Gaëlle Richer,Joris Sansen,Frédéric Lalanne,David Auber,Romain Bourqui Big Data Research, In press Article dans une revue hal-02173027v1
Visualizing omics and clinical data: which challenges for dealing with their variety? Fleur Mougin,David Auber,Romain Bourqui,Gayo Diallo,Isabelle Dutouret al. Methods, 2018, 132, pp.3-18. ⟨10.1016/j.ymeth.2017.08.012⟩ Article dans une revue istex hal-03160796v2
Visual Exploration of Large Multidimensional Data Using Parallel Coordinates on Big Data Infrastructure Joris Sansen,Gaëlle Richer,Timothée Jourde,Frédéric Lalanne,David Auberet al. Informatics, 2017, 4 (3), ⟨10.3390/informatics4030021⟩ Article dans une revue hal-01610951v1
rNAV 2.0: a visualization tool for bacterial sRNA-mediated regulatory networks mining Romain Bourqui,Isabelle Dutour,Jonathan Dubois,William Benchimol,Patricia Thebault BMC Bioinformatics, 2017, 18 (1), ⟨10.1186/s12859-017-1598-8⟩ Article dans une revue hal-01521081v1
Advantages of mixing bioinformatics and visualization approaches for analyzing sRNA-mediated regulatory bacterial networks. Patricia Thebault,Romain Bourqui,Benchimol William,Christine Gaspin,Pascal Sirand-Pugnetet al. Briefings in Bioinformatics, 2015, 16 (5), pp.1-11. ⟨10.1093/bib/bbu045⟩ Article dans une revue hal-01090907v1
ImPrEd: An Improved Force-Directed Algorithm that Prevents Nodes from Crossing Edges Paolo Simonetto,Daniel Archambault,David Auber,Romain Bourqui Computer Graphics Forum, 2011, IEEE Symposium on visualization 2011 (EuroVis 2011), 30 (3) Article dans une revue inria-00605921v1
Communities and hierarchical structures in dynamic social networks: analysis and visualization Frédéric Gilbert,Paolo Simonetto,Faraz Zaidi,Fabien Jourdan,Romain Bourqui Social Network Analysis and Mining, 2011, 1 (2), pp.85-95. ⟨10.1007/s13278-010-0002-8⟩ Article dans une revue hal-00520936v1
Pathway Preserving Representation of Metabolic Networks Antoine Lambert,Jonathan Dubois,Romain Bourqui Computer Graphics Forum, 2011, Special Issue Bergen, Norway 1 - 3 June 2011, 30 (3), pp.1021 - 1030 Article dans une revue inria-00579267v1
Winding Roads: Routing edges into bundles Antoine Lambert,Romain Bourqui,David Auber Computer Graphics Forum, 2010, 29 (3), pp.853-862 Article dans une revue hal-00495279v1
Un algorithme stable de décomposition pour l'analyse des réseaux sociaux dynamiques Romain Bourqui,Paolo Simonetto,Fabien Jourdan Revue des Nouvelles Technologies de l'Information, 2009, pp.337-348 Article dans une revue hal-00406437v1
Metabolic network visualization eliminating node redundance and preserving metabolic pathways Romain Bourqui,L. Cottret,Vincent Lacroix,D. Auber,P. Maryet al. BMC Biology, 2007, 1 - n°29, pp.1-19. ⟨10.1186/1752-0509-1-29⟩ Article dans une revue hal-00434765v1
Metabolic network visualization using constraint planar graph drawing algorithm Romain Bourqui,D. Auber,Vincent Lacroix,F. Jourdan incollection, 2006, --, pp.489-496 Article dans une revue hal-00427907v1

Communication dans un congrès (34)

Multi Layered Feature Explanation Method for Convolutional Neural Networks ⋆ Luca Bourroux,Jenny Benois-Pineau,Romain Bourqui,Romain Giot International Conference on Pattern Recognition and Artificial Intelligence (ICPRAI), Jun 2022, Paris, France. ⟨10.1007/978-3-031-09037-0_49⟩ Communication dans un congrès hal-03689004v1
Samples Classification Analysis Across DNN Layers with Fractal Curves Adrien Halnaut,Romain Giot,Romain Bourqui,D. Auber ICPR 2020's Workshop Explainable Deep Learning for AI, Jan 2021, Milano (virtual), Italy Communication dans un congrès hal-03111634v1
Deep Dive into Deep Neural Networks with Flows Adrien Halnaut,Romain Giot,Romain Bourqui,David Auber Proceedings of the 15th International Joint Conference on Computer Vision, Imaging and Computer Graphics Theory and Applications (VISIGRAPP 2020): IVAPP, Feb 2020, Valletta, Malta. pp.231-239 Communication dans un congrès hal-02492393v1
CorFish: Coordinating Emphasis across Multiple Views using Spatial Distortion Gaëlle Richer,Romain Bourqui,David Auber 12th IEEE Pacific Visualization Symposium (PacificVis 2019), Apr 2019, Bangkok, Thailand Communication dans un congrès hal-02103783v1
Enabling Hierarchical Exploration for Large-Scale Multidimensional Data with Abstract Parallel Coordinates Gaëlle Richer,Joris Sansen,Frédéric Lalanne,David Auber,Romain Bourqui International Workshop on Big Data Visual Exploration and Analytics 2018, Mar 2018, Vienna, Austria. pp.76-83 Communication dans un congrès hal-01700775v2
HeatPipe: High Throughput, Low Latency Big Data Heatmap with Spark Streaming Alexandre Perrot,Romain Bourqui,Nicolas Hanusse,David Auber IV2017 - 21st International Conference on Information Visualisation, Jul 2017, Londres, United Kingdom Communication dans un congrès hal-01516888v1
Deciphering gene sets annotations with ontology based visualization Aarón Ayllón-Benítez,Fleur Mougin,Jesualdo Tomás Fernández-Breis,Manuel Quesada Martinez,Patricia Thebaultet al. 21 st International conference information visualisation, Jul 2017, London, United Kingdom Communication dans un congrès hal-01524572v1
Visualization of sRNA-mRNA Interaction Predictions Joris Sansen,Patricia Thebault,Isabelle Dutour,Romain Bourqui 20th International Conference Information Visualisation (IVS 2016), Jul 2016, Lisbonne, Portugal. pp.342-347, ⟨10.1109/IV.2016.14⟩ Communication dans un congrès hal-01559083v1
Multilayer Graph Edge Bundling Romain Bourqui,Dino Ienco,Arnaud Sallaberry,Pascal Poncelet IEEE Pacific Visualization Symposium (PacificVis), Apr 2016, Taipei, Taiwan. pp.184-188, ⟨10.1109/PACIFICVIS.2016.7465267⟩ Communication dans un congrès lirmm-01304602v1
Audit d’une base de documents étiquetée Romain Giot,Romain Bourqui,Nicholas Journet,Anne Vialard Colloque International Francophone sur l’Écrit et le Document 2016 (CIFED), Mar 2016, Toulouse, France. pp.153-166 Communication dans un congrès hal-01286564v1
Zoo Graph: a New Visualisation for Biometric System Evaluation Romain Giot,Romain Bourqui,Mohamad El-Abed Information Visualisation 2016 (IV2016), Jul 2016, Lisbonne, Portugal Communication dans un congrès hal-01355690v1
Fast Graph Drawing Algorithm Revealing Networks Cores Romain Giot,Romain Bourqui Proceedings of the 19th International Conference Information Visualisation, Jul 2015, Barcelone, Spain Communication dans un congrès hal-01170017v1
Large Interactive Visualization of Density Functions on Big Data Infrastructure Alexandre Perrot,Romain Bourqui,Nicolas Hanusse,Frédéric Lalanne,David Auber 5th IEEE Symposium on Large Data Analysis and Visualization, IEEE, Oct 2015, Chicago, United States Communication dans un congrès hal-01188721v1
Visual Graph Analysis for Quality Assessment of Manually Labelled Documents Image Database Romain Giot,Romain Bourqui,Nicholas Journet,Anne Vialard 13th International Conference on Document Analysis and Recognition (ICDAR 2015), Aug 2015, Tunis, Tunisia. pp.7 Communication dans un congrès hal-01170011v1
Adjasankey: Visualization of huge hierarchical weighted and directed graphs Joris Sansen,Frédéric Lalanne,David Auber,Romain Bourqui Conference on Information Visualisation (IV'15), Jul 2015, barcelone, Spain. pp.211 - 216, ⟨10.1109/iV.2015.46⟩ Communication dans un congrès hal-01189106v1
Edge Visual Encodings in Matrix-Based Diagrams Joris Sansen,Romain Bourqui,Bruno Pinaud,Helen Purchase Information Visualisation (iV), 2015 19th International Conference on , Jul 2015, barcelone, Spain. pp.62 - 67, ⟨10.1109/iV.2015.22⟩ Communication dans un congrès hal-01189166v1
A visualization approach to analyse bacterial sRNA-mediated regulatory networks Jonathan Dubois,Amine Ghozlane,Patricia Thébault,Isabelle Dutour,Romain Bourqui Journées Ouvertes Biologie Informatique Mathématiques (JOBIM 2013), Jul 2013, France. pp.Poster Communication dans un congrès hal-00838731v1
Visualization of time-series data in the context of metabolic networks with Systrip Software Jonathan Dubois,Ludovic Cottret,Amine Ghozlane,David Auber,Frédéric Bringaudet al. Journées Ouvertes Biologie Informatique Mathématiques (JOBIM 2013), Jul 2013, France Communication dans un congrès hal-00838725v1
Genome-wide detection of sRNA targets with rNAV Jonathan Dubois,Amine Ghozlane,Patricia Thebault,Isabelle Dutour,Romain Bourqui Symposium on Biological Data Visualization, Oct 2013, Atlanta, United States. pp.81 - 88 Communication dans un congrès hal-00935443v1
Visualizing patterns in Node-link Diagrams Antoine Lambert,François Queyroi,Romain Bourqui 16th International Conference on Information Visualisation (IV'12), Jul 2012, Montpellier, France. pp.48-53 Communication dans un congrès hal-00744965v1
Systrip: a visual environment for the investigation of time-series data in the context of metabolic networks Jonathan Dubois,Ludovic Cottret,Amine Ghozlane,David Auber,Frédéric Bringaudet al. 16th International Conference on Information Visualization (IV'12), Jul 2012, Montpellier, France. pp.4771a204 Communication dans un congrès hal-00742176v1
iRNA: Integrative pipeline for genome-wide detection of sRNA targets Amine Ghozlane,Jonathan Dubois,Isabelle Dutour,Romain Bourqui,Marc Bretonet al. "Autour des ARNs non codant" - Rencontre bioinformatique 2012, Feb 2012, Toulouse, France Communication dans un congrès hal-00695794v1
Domain specific vs Generic Network Visualization: an evaluation with metabolic networks Romain Bourqui,Helen Purchase,Fabien Jourdan Australasian Conference on User Interface, Jan 2011, Australia. pp.9-18 Communication dans un congrès hal-00579230v1
3D Edge Bundling for Geographical Data Visualization Antoine Lambert,Romain Bourqui,David Auber IV 2010 - 14th International Conference on Information Visualization, Jul 2010, London, United Kingdom. pp.329-335 Communication dans un congrès hal-00495307v1
Tulip: a Scalable Graph Visualization Framework David Auber,Patrick Mary,Morgan Mathiaut,Jonathan Dubois,Antoine Lambertet al. Extraction et Gestion des Connaissances (EGC) 2010, Jan 2010, Hammamet, Tunisia. pp.623-624 Communication dans un congrès inria-00482563v1
Detecting structural changes and command hierarchies in dynamic social networks Romain Bourqui,Frédéric Gilbert,Paolo Simonetto,Faraz Zaidi,Umang Sharanet al. Advances in Social Network Analysis and Data Mining, 2009, Greece. pp.83-88 Communication dans un congrès hal-00406240v1
Visualizing Temporal Dynamics at the Genomic and Metabolic Level Romain Bourqui,Michel A. Westenberg International Conference on Information Visualisation (IV'09),, Jul 2009, Spain. pp.317-322 Communication dans un congrès hal-00406247v1
Large Quasi-Tree Drawing: A Neighborhood Based Approach Romain Bourqui,David Auber 13th International Conference on Information Visualisation, Jul 2009, Spain. pp.653-660 Communication dans un congrès hal-00406435v1
VAST 2008 Challenge: Social network dynamics using cell phone call patterns Romain Bourqui,Faraz Zaidi,Frédéric Gilbert,Umang Sharan,Paolo Simonetto IEEE Symposium on Visual Analytics Science and Technology, 2008, United States Communication dans un congrès hal-00335647v1
Revealing subnetwork roles using contextual visualization: comparison of metabolic networks Romain Bourqui,Fabien Jourdan 12th International Conference on Information Visualisation, Jul 2008, London, United Kingdom. pp.638-643 Communication dans un congrès hal-00343889v1
How to Draw ClusteredWeighted Graphs using a Multilevel Force-Directed Graph Drawing Algorithm Romain Bourqui,David Auber,Patrick Mary 11th International Conference on Information Visualisation, IV 2007, Jul 2007, Sweden. pp.757-764 Communication dans un congrès hal-00306672v1
Comparaison Visuelle de Réseaux Métaboliques Romain Bourqui,Fabien Jourdan 8èmes Journées Ouvertes Biologie Informatique Mathématiques, 2007, France. pp.285-286 Communication dans un congrès hal-00306674v1
Metabolic network visualization using constraint planar graph drawing Algorithm Romain Bourqui,David Auber,Vincent Lacroix,Fabien Jourdan IV 06: Proceedings of the 10 International Conference on Information Visualisation (IV06), 2006, United States. pp.489 - 496 Communication dans un congrès hal-00306676v1
Un Algorithme Contraint de Dessin de Graphe Planaire pour la Visualisation de Réseaux Métaboliques Romain Bourqui,David Auber,Vincent Lacroix,Fabien Jourdan Quatrième édition du congrés francophone de doctorants en STIC, MajecSTIC, 2006, France. pp.électronique Communication dans un congrès hal-00306673v1

Poster de conférence (2)

Deciphering functional annotation of multiple gene sets with MOTVIS Aarón Ayllón-Benítez,Fleur Mougin,Manuel Quesada Martinez,Jesualdo Tomás Fernández Breis,Romain Bourquiet al. Jornées ouvertes de biologie informatique et matematiques, Jul 2018, Marseille, France Poster de conférence hal-02401858v1
Visualizing RNA Secondary Structure Base Pair Binding Probabilities using Nested Concave Hulls Joris Sansen,Romain Bourqui,Patricia Thebault,Julien Allali,David Auber 5th Symposium on Biological Data Visualization, Jul 2015, Dublin, Ireland Poster de conférence hal-01664524v1

Ouvrages (1)

Explainable Deep Learning AI Jenny Benois-Pineau,R. Bourqui,Dragutin Petkovic,Georges Quénot Elsevier, 2023, 978-0-323-96098-4. ⟨10.1016/c2021-0-01538-8⟩ Ouvrages hal-04136666v1

Chapitre d'ouvrage (8)

Explainable AI in Image Classification Tasks: How to Choose the Best? Alexey Zhukov,Jenny Benois-Pineau,Romain Giot,Romain Bourqui Emotional Data Applications and Regulation of Artificial Intelligence in Society, 69, Springer Nature Switzerland, pp.49-70, 2025, Law, Governance and Technology Series, ⟨10.1007/978-3-031-80111-2_4⟩ Chapitre d'ouvrage hal-04999611v1
FEM and Multi-Layered FEM: Feature Explanation Methods with Statistical Filtering of Important Features Alexey Zhukov,Jenny Benois-Pineau,Romain Giot,Romain Bourqui,Luca Bourroux Emerging Topics in Pattern Recognition and Artificial Intelligence, 09, WORLD SCIENTIFIC, pp.295-327, 2024, Series on Language Processing, Pattern Recognition, and Intelligent Systems, ⟨10.1142/9789811289125_0012⟩ Chapitre d'ouvrage hal-04698686v1
TULIP 5 David Auber,Daniel Archambault,Romain Bourqui,Maylis Delest,Jonathan Duboiset al. Reda Alhajj; Jon Rokne. Encyclopedia of Social Network Analysis and Mining, Springer, pp.1-28, 2017, 978-1-4614-7163-9. ⟨10.1007/978-1-4614-7163-9_315-1⟩ Chapitre d'ouvrage hal-01654518v1
Tulip III David Auber,Daniel Archambault,Romain Bourqui,Maylis Delest,Jonathan Duboiset al. Encyclopedia of Social Network Analysis and Mining, 2014, 978-1-4614-6169-2. ⟨10.1007/978-1-4614-6170-8_315⟩ Chapitre d'ouvrage hal-01096759v1
Comparing Multilevel Clustering Methods on Weighted Graphs: The Case of Worldwide Air Passenger Traffic 2000-2004 Céline Rozenblat,Guy Melançon,Romain Bourqui,David Auber Methods for Multilevel Analysis and Visualisation of Geographical Networks, Springer, pp.141-154, 2013 Chapitre d'ouvrage hal-00841187v1
Graph Visualization for Geography Antoine Lambert,Romain Bourqui,David Auber Methods for Multilevel Analysis and Visualisation of Geographical Networks, Springer, pp.81-102, 2013 Chapitre d'ouvrage hal-00841188v1
A stable decomposition algorithm for dynamical social network analysis Romain Bourqui,Paolo Simonetto,Fabien Jourdan Fabrice Guillet; Gilbert Ritschard; Djamel Abdelkader Zighed and Henri Briand. Advances in Knowledge Discovery and Management, Springer, pp.167-178, 2010, Studies in Computational Intelligence, ⟨10.1007/978-3-642-00580-0_10⟩ Chapitre d'ouvrage hal-00543175v1
Mining Networks through Visual Analytics: Incremental Hypothesis Building and Validation David Auber,Guy Melançon,Romain Bourqui Clive Best, Françoise Fogelman Soulié. Mining Massive Data Sets for Security, IOS Press, pp.204-211, 2008, NATO Advanced Study Institute, 978-1-58603-898-4 Chapitre d'ouvrage lirmm-00272781v1

Rapport (2)

TULIP 4 David Auber,Romain Bourqui,Maylis Delest,Antoine Lambert,Patrick Maryet al. [Research Report] LaBRI - Laboratoire Bordelais de Recherche en Informatique. 2016 Rapport (rapport de recherche) hal-01359308v1
The Tulip 3 Framework: A Scalable Software Library for Information Visualization Applications Based on Relational Data David Auber,Daniel Archambault,Romain Bourqui,Antoine Lambert,Morgan Mathiautet al. [Research Report] RR-7860, INRIA. 2012, pp.31 Rapport (rapport de recherche) hal-00659880v1

Thèse (1)

Décomposition et Visualisation de graphes : Applications aux Données Biologiques Romain Bourqui Interface homme-machine [cs.HC]. Université Sciences et Technologies - Bordeaux I, 2008. Français. ⟨NNT : ⟩ Thèse tel-00421872v1

Proceedings/Recueil des communications (5)

Mean Opinion Score as a New Metric for User-Evaluation of XAI Methods Hyeon Yu,Jenny Benois-Pineau,Romain Bourqui,Romain Giot,Alexey Zhukov arXiv, arXiv, 2024, ⟨10.48550/arXiv.2407.20427⟩ Proceedings/Recueil des communications hal-04698571v1
Deep Neural Network for DrawiNg Networks, (DNN) &lt;sup&gt;2&lt;/sup&gt; Loann Giovannangeli,Frédéric Lalanne,David Auber,Romain Giot,Romain Bourqui 12868, Springer International Publishing, pp.375-390, 2022, Lecture Notes in Computer Science, ⟨10.1007/978-3-030-92931-2_27⟩ Proceedings/Recueil des communications hal-03526866v1
FORBID: Fast Overlap Removal By stochastic gradIent Descent for Graph Drawing Loann Giovannangeli,Frédéric Lalanne,Romain Giot,Romain Bourqui 13764, Springer International Publishing, pp.61-76, 2022, Lecture Notes in Computer Science, ⟨10.1007/978-3-031-22203-0_6⟩ Proceedings/Recueil des communications hal-03774089v1
Relative Confusion Matrix: Efficient Comparison of Decision Models Luc-Etienne Pommé,Romain Bourqui,Romain Giot,David Auber IEEE, pp.98-103, ⟨10.1109/IV56949.2022.00025⟩ Proceedings/Recueil des communications hal-03706436v1
Analysis of Deep Neural Networks Correlations with Human Subjects on a Perception Task Loann Giovannangeli,Romain Giot,David Auber,Jenny Benois-Pineau,Romain Bourqui IEEE, pp.129-136, ⟨10.1109/IV53921.2021.00029⟩ Proceedings/Recueil des communications hal-03259690v1