Julien Allali

Publications

Article dans une revue (7)

A new method for evaluating the impacts of semantic similarity measures on the annotation of gene sets Aarón Ayllón-Benítez,Fleur Mougin,Julien Allali,Rodolphe Thiébaut,Patricia Thebault PLoS ONE, 2018, 13 (11), pp.e0208037. ⟨10.1371/journal.pone.0208037⟩ Article dans une revue hal-01938961v1
BRASERO: A resource for benchmarking RNA secondary structure comparison algorithms Julien Allali,Cédric Saule,Cedric Chauve,Yves d'Aubenton-Carafa,Alain Deniseet al. Advances in Bioinformatics, 2012, 2012, pp.1-5. ⟨10.1155/2012/893048⟩ Article dans une revue hal-00647725v1
Efficient chaining of seeds in ordered trees Julien Allali,Cedric Chauve,Pascal Ferraro,Anne-Laure Gaillard Journal of Discrete Algorithms, 2012 Article dans une revue hal-00647714v1
Toward a general framework for polyphonic comparison Julien Allali,Pascal Ferraro,Pierre Hanna,C.S. Iliopoulos,Matthias Robine Fundamenta Informaticae, 2009, 97 (3), pp.331--346 Article dans une revue hal-00523428v1
A multiple layer model to compare RNA secondary structures Julien Allali,Marie-France Sagot Software: Practice and Experience, 2008, 38 (8), pp.775-792. ⟨10.1002/spe.846⟩ Article dans une revue hal-00306662v1
Indexing gapped-factors using a tree Pierre Peterlongo,Julien Allali,Marie-France Sagot International Journal of Foundations of Computer Science, 2008, 19 (1), pp.71-87. ⟨10.1142/S0129054108005541⟩ Article dans une revue inria-00179719v1
A new distance for high level RNA secondary structure comparison Julien Allali,Marie-France Sagot IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2005, 2, pp.3--14 Article dans une revue hal-00306658v1

Communication dans un congrès (14)

Rhoban Football Club: RoboCup Humanoid Kid-Size 2023 Champion Team Paper Julien Allali,Adrien Boussicault,Cyprien Brocaire,Céline Dobigeon,Marc Duclusaudet al. 26th RoboCup International Symposium (RoboCup 2025), Jul 2023, Bordeaux, France. pp.325-336, ⟨10.1007/978-3-031-55015-7_27⟩ Communication dans un congrès hal-05310493v1
Chaining Sequence/Structure Seeds for Computing RNA Similarity Laetitia Bourgeade,Cedric Chauve,Julien Allali First Workshop on Computational Methods for Structural RNAs - CMRS'14, Sep 2014, Strasbourg, France Communication dans un congrès hal-01019797v1
Efficient chaining of seeds in ordered trees Julien Allali,Cédric Chauve,Pascal Ferraro,Anne-Laure Gaillard 21st International Workshop on Combinatorial Algorithms, Jul 2010, London, United Kingdom Communication dans un congrès hal-00490028v1
Combinatorial detection of arrhytmia Julien Allali,Pavlos Antoniou,Pascal Ferraro,C.S. Iliopoulos,Spiros Michalakopoulos 3rd International Conference on Bio-inspired Systems and Signal Processing, Jan 2010, Valencia, Spain. pp.180--187 Communication dans un congrès hal-00523484v1
Extending Alignment Algorithm for Polyphonic Comparison Pascal Ferraro,Julien Allali,Pierre Hanna,Matthias Robine International Computer Music Modeling and Retrieval Conference (CMMR), 2009, Denmark. pp.206-209 Communication dans un congrès hal-00391094v1
Validation and Decomposition of Partially Occluded Images with Holes Pavlos Antoniou,Julien Allali,Costas Iliopoulos,Pascal Ferraro Prague Stringology Conference, Aug 2009, Prague, Czech Republic. pp.129--136 Communication dans un congrès hal-00403709v1
Overlay problems for music and combinatorics Julien Allali,Pavlos Antoniou,Pascal Ferraro,Costas Iliopoulos,Spiros Michalakopoulos International Conference on Auditory Display, May 2009, Copenhagen, Denmark. pp.138--143 Communication dans un congrès hal-00411792v1
Benchmarking RNA secondary structure comparison algorithms Julien Allali,Yves d'Aubenton-Carafa,Cedric Chauve,Alain Denise,Christine Drevetet al. JOBIM'08, 2008, Lille, France. pp.67-68 Communication dans un congrès hal-00375710v1
Improvements of Alignment Algorithms for Polyphonic Music Retrieval Pierre Hanna,Matthias Robine,Pascal Ferraro,Julien Allali Computer Music Modeling and Retrieval 2008, 2008, Denmark. pp.244-251 Communication dans un congrès hal-00306949v1
Local Transpositions in Alignment of Polyphonic Musical Sequences Julien Allali,Pascal Ferraro,Pierre Hanna,Costas Iliopoulos Proceedings of the 14th String Processing and Information Retrieval Symposium (SPIRE07), 2007, Chile. pp.26-38 Communication dans un congrès hal-00307877v1
Adaptation of String Matching Algorithms for Identification of Near-Duplicate Music Documents Matthias Robine,Pierre Hanna,Pascal Ferraro,Julien Allali Workshop on Plagiarism Analysis, Authorship Identification, and Near-Duplicate Detection (PAN07), Jul 2007, Amsterdam, Netherlands. pp.37--43 Communication dans un congrès hal-00306567v1
The Gapped-Factor Tree Pierre Peterlongo,Julien Allali,Marie-France Sagot Prague Stringology Conference 2006, 2006, Prague, Czech Republic. pp.182--196 Communication dans un congrès hal-00306572v1
A Multiple Graph Layers Model with Application to RNA Secondary Structures Comparison Julien Allali,Marie-France Sagot String Processing and Information Retrieval 2005 (SPIRE 2005), Nov 2005, Buenos Aires, Argentina. pp.348--359, ⟨10.1007/11575832_39⟩ Communication dans un congrès hal-00306660v1
Novel tree edit operations for RNA secondary structure comparison Julien Allali,Marie-France Sagot Workshop on Algorithms in Bioinformatics 2004, 2004, Bergen, Denmark. pp.412--425, ⟨10.1007/978-3-540-30219-3_35⟩ Communication dans un congrès hal-00306661v1

Poster de conférence (1)

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

Chapitre d'ouvrage (2)

Detection of Near-Duplicate Musical Documents from a Multi-Level Comparison of Tonal Information Pascal Ferraro,Matthias Robine,Julien Allali,Pierre Hanna,Rocher Thomas Information Extraction from the Internet, iconcept press, pp.129--143, 2011 Chapitre d'ouvrage hal-00643529v1
Polyphonic alignment algorithms for symbolic music retrieval Julien Allali,Pascal Ferraro,Pierre Hanna,Matthias Robine Ystad, S. and Aramaki, M. and Kronland-Martinet, R. and Jensen, K. Auditory Display, Springer Verlag Berlin, pp.466--482, 2010, LNCS, ⟨10.1007/978-3-642-12439-6_24⟩ Chapitre d'ouvrage istex hal-00523486v1

Brevet (1)

Exemplar Based Assignment of Large Missing Audio Parts using String Matching on Tonal Features Benjamin Martin,Pierre Hanna,Vinh-Thong Ta,Myriam Desainte-Catherine,Julien Allaliet al. United States, Patent n° : US61/547,854. 2011 Brevet hal-01006489v1

Rapport (2)

Rapport scientifique final du projet E-Fran PERSEVERONS Anne Lehmans,Estelle Blanquet,Fabrice Vandebrouck,Grégory Train,Anne Cordieret al. [Rapport de recherche] Université de Bordeaux. 2022 Rapport (rapport de recherche) hal-03723508v1
The at-most $k$-deep factor tree Julien Allali,Marie-France Sagot 2004 Rapport hal-00627813v1

Thèse (1)

Comparaison de structures secondaires d'ARN Julien Allali Informatique [cs]. Université de Marne la Vallée, 2004. Français. ⟨NNT : ⟩ Thèse tel-00637131v1