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news

Open positions (internship, phd thesis, post-doc)

Upcoming

Arthur MARMIN will defend his PhD thesis on 8th December 2020 at Université Paris-Saclay on "Exact optimization of rational models and application for solving signal processing problems". Check Arthur MARMIN's publications.

News and novel stuff (all publications)

Tutorial (invited): CORESA 2020 (postponed): Issues and Challenges in compression techniques for massive simulation data (Tutorial 4 : Enjeux et défis des techniques de compression pour les données de simulation massives)
Paper: Sparse Signal Reconstruction for Nonlinear Model via Piecewise Rational Optimization; Arthur Marmin, Marc Castella, Jean-Christophe Pesquet, Laurent Duval. Signal Processing, February 2021 [doi] [arxiv] [hal]
Paper: Glucose-lactose mixture feeds in industry-like conditions: a gene regulatory network analysis on the hyperproducing Trichoderma reesei strain Rut-C30; Aurélie Pirayre, Laurent Duval, Corinne Blugeon, Cyril Firmo, Sandrine Perrin, Etienne Jourdier, Antoine Margeot, Frédérique Bidard. BMC Genomics, 2020
Paper: SPOQ l_p-Over-l_q Regularization for Sparse Signal Recovery applied to Mass Spectrometry, Afef CHERNI, Emilie CHOUZENOUX, Laurent DUVAL, and Jean-Christophe PESQUET. IEEE Transactions on Signal Processing, 2020 [doi] [hal] [arxiv]
Paper: HexaShrink, an exact scalable framework for hexahedral meshes with attributes and discontinuities: multiresolution rendering and storage of geoscience models, Computation geosciences, 2019

Aurélie Pirayre is awarded the IFP Energies nouvelles (IFPEN) Yves Chauvin price for her PhD thesis on the BRANE power: Gene network inference with graph optimization

Aurélie Pirayre: Three questions to Aurélie Pirayre,IFPEN's 2018 yves chauvin prize-winner
IFPEN's Scientific Board awarded the 2018 Yves Chauvin prize to Aurélie Pirayre for her thesis entitled "Reconstruction and Clustering with Graph optimization and Priors on Gene networks and Images". Aurélie Pirayre received her award at the ceremony held at IFPEN's Rueil-Malmaison site on 19 November 2018. Her work represents an advance in the adaptation of image processing methods for the purposes of representing biological data in graph form. Directed by Jean-Christophe Pesquet (Université Paris-Est Marne-la-Vallée, now CentraleSupélec), her research was supervised by Frédérique Bidard-Michelot and Laurent Duval at IFPEN.
manuscript and slides from her PhD defense Reconstruction and clustering with graph optimization and priors on gene networks and images are online
Reconstruction et classification par optimisation dans des graphes avec a priori pour les réseaux de gènes et les images, french title.
See also: EURASIP Library of PhD Theses and TEL Theses @ HAL: Reconstruction and Clustering with Graph optimization and Priors on Gene networks and Images (serveur de thèse multidisciplinaire).

Funded projects, PhD students and collaborations

BIFROST, Interdisciplinary AMIDEX project (funded by Fondation Universitaire A*MIDEX (Aix-Marseille Université): Blind Identification, Filtering & Restoration On Spectral Techniques, with I2M, ISM2 and IFP Energies nouvelles (IFPEN), on the development of data processing and data acquisition schemes capable of improving the power of chemical analysis of complex mixtures, in view of achieving a qualitative and quantitative decomposition of instrumental responses (principal investigator: Caroline Chaux)
MajIC: Majorization-Minimization Algorithms for Image Computing (Algorithmes de Majoration-Minimisation pour le traitement d'images): ANR project Jeunes Chercheuses et Jeunes Chercheurs (coordinator: Emilie Chouzenoux)
Surabhi JAGTAP (Pune, Maharashtra, India), to work from January 2019 on Bioinformatics graph processing for multi-omics networks, Paris, related to our BRANE power algorithms (BRANE: Biologically-Related Apriori Network Estimation)
Lauriane BOUARD, starting November 2017: Progressive compression of large evolutionary volumic meshes: geometry and properties (Compression progressive de maillages volumiques massifs et évolutifs : géométrie et propriétés), supervised with Frédéric Payan, Marc Antonini (MediaCoding Laboratory, Université Côte d'Azur)
Arthur MARMIN, CentraleSupélec PhD grant (formely Carnot Energie), starting Oct. 2017: Modèles rationnels optimisés de manière exacte pour l'amélioration des procédés chimiques (Exactly optimized rational models for chemical process improvement), coordinated with Marc Castella (TelecomParisSud) and Jean-Christophe Pesquet (CentraleSupélec)

Recent work

Bioinformatics: Gene regulatory network inference (BRANE: Biologically-Related Apriori Network Enhancement)

BRANE Clust: cluster-assisted gene regulatory network inference refinement, IEEE/ACM Transactions on Computational Biology and Bioinformatics, May-June 2018
BRANE Cut: biologically-related apriori network enhancement with Graph cuts for Gene Regulatory Network inference, BMC Bioinformatics, December 2015

Cyber-physical Systems simulation (CHOPTrey: fast polynomial extrapolation)

CHOPtrey: contextual online polynomial extrapolation for enhanced multi-core co-simulation of complex systems, Simulation: Transactions of the Society for Modeling and Simulation International, March 2017

Geophysics-Seismic: Sparse blind deconvolution with norm ratio (SOOT)

Euclid in a Taxicab: Sparse Blind Deconvolution with Smoothed l₁/l₂ Regularization, IEEE Signal Processing Letters, 2015

Geophysics-Seismic: Adaptive, model-based adaptive multiple reflection filtering (with wavelet frames, adaptive filtering and optimization)

A Primal-Dual Proximal Algorithm for Sparse Template-Based Adaptive Filtering: Application to Seismic Multiple Removal, IEEE Transactions on Signal Processing, 2014
Adaptive multiple subtraction with wavelet-based complex unary Wiener filters, Geophysics, 2012

Geophysics-Seismic: classification, deep learning

CATSEYES: Categorizing Seismic structures with tessellated scattering wavelet networks, ICASSP 2018

Analytical chemistry: trend/baseline and noise removal (BEADS, sparsity and positivity)

Chromatogram baseline estimation and denoising using sparsity (BEADS), Chemometrics and Intelligent Laboratory Systems, 2014

Analytical chemistry: image registration for comprehensive GCxGC (BARCHAN)

BARCHAN: Blob Alignment for Robust CHromatographic ANalysis (GCxGC), Journal of Chromatography A, February 2017

Special sessions, issues, call for papers

The Society of Exploration Geophysics (SEG) journal Geophysics issues a Call for papers around Signal Processing: Taking signal and noise to new dimensions (call for papers) (editors: Mauricio Sacchi, Sergey Fomel, Mostafa Naghizadeh, Laurent Duval).

ICIP 2014: Special session on Image Processing for Materials Characterization with an introductory overview paper on Image Processing for Materials Characterization: Issues, Challenges and Opportunities

Talks

23/03/2018 (Talk): Pics, ligne de base, bruit : séparation ternaire de sources assistée (BEADS : positivité, parcimonie), spectres chimiques & miscellanées, séminaire at séminaires signal - apprentissage, signal and image processing group at I2M and the Qarma team at LIF, université Aix-Marseille

09/10/2017 (Talk): Retour sur... la ligne de base. BEADS : correction et filtrage conjoints de mesures analytiques exploitant positivité et parcimonie (résumé). Page : BEADS : correction et filtrage conjoints de mesures analytiques exploitant positivité et parcimonie, séminaire at Institut des Sciences Analytiques (ISA), Lyon (thanks to Christophe Morell)

03/07/2017 (PhD defense): Aurélie Pirayre will present, on Monday 3rd July, at 10h30 at ESIEE Paris (2 bd Blaise Pascal, 93162 Noisy-le-Grand), her PhD thesis on the Reconstruction and Clustering with Graph optimization and Priors on Gene networks and Images (IFP Energies nouvelles, université Paris-Est Marne-la-Vallée), with the attendant slides.

26/04/2017 (Talk): DigiCosme (Digital worlds: distributed data, programs and architectures), workshop Optimizing Real-Time Systems, modelling of continuous and logical time for real-time systems design: 14h30-15h00 : Recent developments for mono- or multirate parallel real-time co-simulation: extrapolation and scheduling for multicore architectures [pdf] - Abir Ben Khaled/Nicolas Pernet (IFPEN)

Talk: two talks on adaptive filtering in wavelet frames ("Morphing adaptatif de modèles en trames d'ondelettes : application au filtrage de multiples en sismique "), and on directional/geometric wavelet transforms form image processing ("Petite histoire en images des transformées multi-échelle et en ondelettes en deux-dimensions (curvelets, contourlets, shearlets, dual-tree, etc.)") at Séminaire de Vannes du LMBA

Talk: Un taxi pour Euclide (et non Tobrouk) : déconvolution aveugle parcimonieuse, un algorithme préconditionné avec ratio de normes l1/l2 [abstract+slides+paper], 6 novembre 2014, GdR ISIS : Problèmes inverses ; approches myopes et aveugles, semi- et non-supervisées

Talk: Suppression de réflexions multiples (échos) par filtrage adaptatif dans des trames d'ondelettes : du basique à l'évolué [abstract+slides+paper 1+paper 2], 18 septembre 2014, séminaire Signal Images, université de Bordeaux

Talk: Suppression adaptative de réflexions multiples par filtres de Wiener unaires en trame d'ondelettes complexes [abstract+slides+paper 1+paper 2], 25 mars 2014, SIERRA 2014 (presenter's slides), Signal et Images en Région Rhône-Alpes, Saint-Étienne

Talk: Filtrage adaptatif dans des trames d'ondelettes, application à la suppression d'échos en sismique [abstract+slides+paper 1+paper 2], 18 mars 2014, Université Paris-Nord, journée du pôle Math-STIC, journée images et signaux

Talk: Petite histoire en images des transformées multi-échelle et en ondelettes en deux-dimensions [abstract+slides+paper], Thursday 09 January, 2014, GIPSA-Lab, Grenoble séminaire du département Images et Signal, France