Nombre de documents

24

Julien Allali : algorithms on sequences and trees


Article dans une revue6 documents

  • Julien Allali, Cédric Saule, Cedric Chauve, Yves D'Aubenton-Carafa, Alain Denise, et al.. BRASERO: A resource for benchmarking RNA secondary structure comparison algorithms. Advances in Bioinformatics, Hindawi Publishing Corporation, 2012, 2012 (893048), 5 p. 〈10.1155/2012〉. 〈hal-00647725〉
  • Julien Allali, Cedric Chauve, Pascal Ferraro, Anne-Laure Gaillard. Efficient chaining of seeds in ordered trees. Journal of Discrete Algorithms, Elsevier, 2012. 〈hal-00647714〉
  • Julien Allali, Pascal Ferraro, Pierre Hanna, C.S. Iliopoulos, Matthias Robine. Toward a general framework for polyphonic comparison. Fundamenta Informaticae, Polskie Towarzystwo Matematyczne, 2009, 97 (3), pp.331--346. 〈hal-00523428〉
  • Julien Allali, Marie-France Sagot. A multiple layer model to compare RNA secondary structures. Software: Practice and Experience, Wiley, 2008, 38 (8), pp.775-792. 〈hal-00306662〉
  • Pierre Peterlongo, Julien Allali, Marie-France Sagot. Indexing gapped-factors using a tree. International Journal of Foundations of Computer Science, World Scientific Publishing, 2007. 〈inria-00179719〉
  • Julien Allali, Marie-France Sagot. A new distance for high level RNA secondary structure comparison. IEEE/ACM Transactions on Computational Biology and Bioinformatics, Institute of Electrical and Electronics Engineers, 2005, 2, pp.3--14. 〈hal-00306658〉

Communication dans un congrès13 documents

  • Laetitia Bourgeade, Cedric Chauve, Julien Allali. Chaining Sequence/Structure Seeds for Computing RNA Similarity. First Workshop on Computational Methods for Structural RNAs - CMRS'14, Sep 2014, Strasbourg, France. 2014. 〈hal-01019797〉
  • Julien Allali, Cédric Chauve, Pascal Ferraro, Anne-Laure Gaillard. Efficient chaining of seeds in ordered trees. 21st International Workshop on Combinatorial Algorithms, Jul 2010, London, United Kingdom. 2010. 〈hal-00490028〉
  • Julien Allali, Pavlos Antoniou, Pascal Ferraro, C.S. Iliopoulos, Spiros Michalakopoulos. Combinatorial detection of arrhytmia. 3rd International Conference on Bio-inspired Systems and Signal Processing, Jan 2010, Valencia, Spain. pp.180--187, 2010. 〈hal-00523484〉
  • Pascal Ferraro, Julien Allali, Pierre Hanna, Matthias Robine. Extending Alignment Algorithm for Polyphonic Comparison. International Computer Music Modeling and Retrieval Conference (CMMR), 2009, Denmark. pp.206-209, 2009. 〈hal-00391094〉
  • Pavlos Antoniou, Julien Allali, Costas Iliopoulos, Pascal Ferraro. Validation and Decomposition of Partially Occluded Images with Holes. Prague Stringology Conference, Aug 2009, Prague, Czech Republic. pp.129--136, 2009. 〈hal-00403709〉
  • Julien Allali, Pavlos Antoniou, Pascal Ferraro, Costas Iliopoulos, Spiros Michalakopoulos. Overlay problems for music and combinatorics. Mitsuko Aramaki and Richard Kronland-Martinet and Sølvi Ystad and Kristoffer Jensen. International Conference on Auditory Display, May 2009, Copenhagen, Denmark. pp.138--143, 2009. 〈hal-00411792〉
  • Julien Allali, Yves D'Aubenton-Carafa, Cedric Chauve, Alain Denise, Christine Drevet, et al.. Benchmarking RNA secondary structure comparison algorithms. JOBIM'08, 2008, Lille, France. pp.67-68, 2008. 〈hal-00375710〉
  • Pierre Hanna, Matthias Robine, Pascal Ferraro, Julien Allali. Improvements of Alignment Algorithms for Polyphonic Music Retrieval. Computer Music Modeling and Retrieval 2008, 2008, Denmark. pp.244-251, 2008. 〈hal-00306949〉
  • Julien Allali, Pascal Ferraro, Pierre Hanna, Costas Iliopoulos. Local Transpositions in Alignment of Polyphonic Musical Sequences. Proceedings of the 14th String Processing and Information Retrieval Symposium (SPIRE07), 2007, Chile. pp.26-38, 2007. 〈hal-00307877〉
  • Matthias Robine, Pierre Hanna, Pascal Ferraro, Julien Allali. Adaptation of String Matching Algorithms for Identification of Near-Duplicate Music Documents. Workshop on Plagiarism Analysis, Authorship Identification, and Near-Duplicate Detection (PAN07), Jul 2007, Amsterdam, Netherlands. pp.37--43, 2007. 〈hal-00306567〉
  • Pierre Peterlongo, Julien Allali, Marie-France Sagot. The Gapped-Factor Tree. Prague Stringology Conference 2006, 2006, Czech Republic. pp.182--196, 2006. 〈hal-00306572〉
  • Julien Allali, Marie-France Sagot. A Multiple Graph Layers Model with Application to RNA Secondary Structures Comparison. String Processing and Information Retrieval 2005, Nov 2005, Argentina. Mariano Consens and Gonzalo Navarro, 3772, pp.348--359, 2005. 〈hal-00306660〉
  • Julien Allali, Marie-France Sagot. Novel tree edit operations for RNA secondary structure comparison. Workshop on Algorithms in Bioinformatics 2004, 2004, Bergen, Denmark. 3240, pp.412--425, 2004. 〈hal-00306661〉

Chapitre d'ouvrage2 documents

  • Pascal Ferraro, Matthias Robine, Julien Allali, Pierre Hanna, Rocher Thomas. Detection of Near-Duplicate Musical Documents from a Multi-Level Comparison of Tonal Information. Information Extraction from the Internet, iconcept press, pp.129--143, 2011. 〈hal-00643529〉
  • Julien Allali, Pascal Ferraro, Pierre Hanna, Matthias Robine. Polyphonic alignment algorithms for symbolic music retrieval. 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〉. 〈hal-00523486〉

Brevet1 document

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

Rapport1 document

  • Julien Allali, Marie-France Sagot. The at-most $k$-deep factor tree. 2004. 〈hal-00627813〉

Thèse1 document

  • Julien Allali. Comparaison de structures secondaires d'ARN. Informatique [cs]. Université de Marne la Vallée, 2004. Français. 〈tel-00637131〉