Publications

Balazs Aczel, Barnabas Szaszi, Gustav Nilsonne, Olmo R van den Akker, Casper J Albers, Marcel ALM van Assen, Jojanneke A Bastiaansen, Daniel Benjamin, Udo Boehm, Rotem Botvinik-Nezer, Laura F Bringmann, Niko A Busch, Emmanuel Caruyer, Andrea M Cataldo, Nelson Cowan, Andrew Delios, Noah NN van Dongen, Chris Donkin, Johnny B van Doorn, Anna Dreber, Gilles Dutilh, Gary F Egan, Morton Ann Gernsbacher, Rink Hoekstra, Sabine Hoffmann, Felix Holzmeister, Juergen Huber, Magnus Johannesson, Kai J Jonas, Alexander T Kindel, Michael Kirchler, Yoram K Kunkels, D Stephen Lindsay, Jean-Francois Mangin, Dora Matzke, Marcus R Munafò, Ben R Newell, Brian A Nosek, Russell A Poldrack, Don van Ravenzwaaij, Jörg Rieskamp, Matthew J Salganik, Alexandra Sarafoglou, Tom Schonberg, Martin Schweinsberg, David Shanks, Raphael Silberzahn, Daniel J Simons, Barbara A Spellman, Samuel St-Jean, Jeffrey J Starns, Eric Luis Uhlmann, Jelte Wicherts, Eric-Jan Wagenmakers (2021). Consensus-based guidance for conducting and reporting multi-analyst studies. eLife.

Samuel St-Jean, Max A. Viergever, Alexander Leemans (2020). Harmonization of diffusion MRI datasets with adaptive dictionary learning. Human Brain Mapping.

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Samuel St-Jean, Alberto De Luca, Chantal M. W. Tax, Max A. Viergever, Alexander Leemans (2020). Automated characterization of noise distributions in diffusion MRI data. Medical Image Analysis.

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Samuel St-Jean (2020). Restoration and characterization of diffusion MRI data. PhD Thesis.

Samuel St-Jean, Max A. Viergever, Alexander Leemans (2020). Harmonization of diffusion MRI datasets using automated feature extraction from multiple scanners. ISMRM Benelux.

Samuel St-Jean, Max A. Viergever, Alexander Leemans (2020). Automated feature extraction across scanners for harmonization of diffusion MRI datasets. ISMRM 2020.

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Samuel St-Jean, Maxime Chamberland, Max A. Viergever, Alexander Leemans (2019). Reducing variability in along-tract analysis with diffusion profile realignment. NeuroImage.

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Samuel St-Jean, Max A. Viergever, Alexander Leemans (2019). Code for 'Harmonization of diffusion MRI datasets with adaptive dictionary learning'. Github.

Samuel St-Jean, Alberto De Luca, Chantal M. W. Tax, Max A. Viergever, Alexander Leemans (2019). Code for 'Automated characterization of noise distributions in diffusion MRI data'. Github.

Samuel St-Jean (2019). Code for 'Reducing variability in along-tract analysis with diffusion profile realignment'. Github.

Samuel St-Jean, Alberto De Luca, Max A. Viergever, Alexander Leemans (2019). A separable least squares approach for intravoxel incoherent motion (IVIM) MRI. ISMRM Benelux.

Samuel St-Jean, Alberto De Luca, Max A Viergever, Alexander Leemans (2018). Automatic, Fast and Robust Characterization of Noise Distributions for Diffusion MRI. Medical Image Computing and Computer Assisted Intervention – MICCAI 2018.

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Maxime Chamberland, Samuel St-Jean, Chantal M W Tax, Derek K. Jones (2018). Obtaining representative core streamlines for white matter tractometry of the human brain. Computational Diffusion MRI.

Samuel St-Jean, Alberto De Luca, Max Viergever, Alexander Leemans (2018). Investigating noise distribution changes after motion correction and its effects on subsequent diffusion MRI processing. International Symposium on Magnetic Resonance in Medicine (ISMRM'18).

Samuel St-Jean, Maxime Chamberland, Max A. Viergever, Alexander Leemans (2018). Datasets for 'Reducing variability in along-tract analysis with diffusion profile realignment'. Zenodo.

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Samuel St-Jean, Alberto De Luca, Chantal M. W. Tax, Max A. Viergever, Alexander Leemans (2018). Datasets for 'Automated characterization of noise distributions in diffusion MRI data'. Zenodo.

Chantal M. W. Tax, Francesco Grussu, Enrico Kaden, Lipeng Ning, Umesh Rudrapatna, John Evans, Samuel St-Jean, Alexander Leemans, Santi Puch, Matt Rowe, Paulo Rodrigues, Vesna Prčkovska, Simon Koppers, Dorit Merhof, Aurobrata Ghosh, Ryutaro Tanno, Daniel C Alexander, Cyril Charron, Slawomir Kusmia, David E J Linden, Derek K Jones, Jelle Veraart (2018). Cross-vendor and Cross-protocol harmonisation of diffusion MRI data: a comparative study. ISMRM 2018: 26th Annual Meeting of the International Society for Magnetic Resonance in Medicine.

Klaus H. Maier-Hein, Peter F. Neher, Jean-Christophe Houde, Marc-Alexandre Côté, Eleftherios Garyfallidis, Jidan Zhong, Maxime Chamberland, Fang-Cheng Yeh, Ying-Chia Lin, Qing Ji, Wilburn E. Reddick, John O. Glass, David Qixiang Chen, Yuanjing Feng, Chengfeng Gao, Ye Wu, Jieyan Ma, H. Renjie, Qiang Li, Carl-Fredrik Westin, Samuel Deslauriers-Gauthier, J. Omar Ocegueda González, Michael Paquette, Samuel St-Jean, Gabriel Girard, François Rheault, Jasmeen Sidhu, Chantal M. W. Tax, Fenghua Guo, Hamed Y. Mesri, Szabolcs Dávid, Martijn Froeling, Anneriet M. Heemskerk, Alexander Leemans, Arnaud Boré, Basile Pinsard, Christophe Bedetti, Matthieu Desrosiers, Simona Brambati, Julien Doyon, Alessia Sarica, Roberta Vasta, Antonio Cerasa, Aldo Quattrone, Jason Yeatman, Ali R. Khan, Wes Hodges, Simon Alexander, David Romascano, Muhamed Barakovic, Anna Auría, Oscar Esteban, Alia Lemkaddem, Jean-Philippe Thiran, H. Ertan Cetingul, Benjamin L. Odry, Boris Mailhe, Mariappan S. Nadar, Fabrizio Pizzagalli, Gautam Prasad, Julio E. Villalon-Reina, Justin Galvis, Paul M. Thompson, Francisco De Santiago Requejo, Pedro Luque Laguna, Luis Miguel Lacerda, Rachel Barrett, Flavio Dell'Acqua, Marco Catani, Laurent Petit, Emmanuel Caruyer, Alessandro Daducci, Tim B. Dyrby, Tim Holland-Letz, Claus C. Hilgetag, Bram Stieltjes, Maxime Descoteaux (2017). The challenge of mapping the human connectome based on diffusion tractography. Nature Communications.

Rafael Neto Henriques, Ariel Rokem, Eleftherios Garyfallidis, Samuel St-Jean, Eric Thomas Peterson, Marta Morgado Correia (2017). [RE] Optimization of a free water elimination two-compartment model for diffusion tensor imaging. ReScience.

Samuel St-Jean, Max A. Viergever, Alexander Leemans (2017). Combined upsampling and denoising for diffusion MRI data. ISMRM Benelux 2017.

Samuel St-Jean, Max A. Viergever, Alexander Leemans (2017). A unified framework for upsampling and denoising of diffusion MRI data. 25th Annual Meeting of ISMRM.

Samuel St-Jean, Pierrick Coupé, Maxime Descoteaux (2016). Non Local Spatial and Angular Matching: Enabling higher spatial resolution diffusion MRI datasets through adaptive denoising. Medical Image Analysis.

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Samuel St-Jean (2016). Code for 'Non Local Spatial and Angular Matching : Enabling higher spatial resolution diffusion MRI datasets through adaptive denoising'. Github.

Samuel St-Jean, Max A. Viergever, Alexander Leemans (2016). Denoising diffusion MRI data using a path algorithm strategy. ISMRM workshop : Breaking the barriers of diffusion MRI.

C Granziera, A Daducci, Samuel St-Jean, G Krueger, M Descoteaux (2016). Denoised diffusion spectrum imaging of white matter tracts in the brain stem. International Symposium on Magnetic Resonance in Medicine (ISMRM'16).

Samuel St-Jean, Pierrick Coupé, Maxime Descoteaux (2016). Datasets for 'Non Local Spatial and Angular Matching: Enabling higher spatial resolution diffusion MRI datasets through adaptive denoising'. Github.

Samuel St-Jean, Max A Viergever, Geert Jan Biessels, Alexander Leemans (2016). Correcting spatial misalignment between fiber bundles segments for along-tract group analysis. International Symposium on Magnetic Resonance in Medicine (ISMRM'16).

Samuel St-Jean, Max A Viergever, Geert Jan Biessels, Alexander Leemans (2016). A fast FFT based algorithm for spatial misalignment correction in along-tract group analysis. International Symposium on Magnetic Resonance in Medicine (ISMRM) Benelux.

Samuel St-Jean, Guillaume Gilbert, Maxime Descoteaux (2015). Connectome-like quality diffusion MRI in 13 minutes - Improving diffusion MRI spatial resolution with denoising. International Symposium on Magnetic Resonance in Medicine (ISMRM'15).

Samuel St-Jean (2015). Acquisitions d'IRM de diffusion à haute résolution spatiale : nouvelles perspectives grâce au débruitage spatialement adaptatif et angulaire. MSc Thesis.

Samuel St-Jean, Michael Paquette, Eleftherios Garyfallidis, Maxime Descoteaux (2014). Spherical Deconvolution on single shell and multishell combined with denoising. MICCAI Computational Diffusion MRI workshop challenge.

Samuel St-Jean, Pierrick Coupé, Maxime Descoteaux (2014). Non Local Spatial and Angular Matching : a new denoising technique for diffusion MRI. International Symposium on Magnetic Resonance in Medicine (ISMRM'14).

Michael Paquette, Gonzalo Sanguinetti, Samuel St-Jean, Eleftherios Garyfallidis, Maxime Descoteaux (2014). Cartesian 3D-SHORE with Laplacian Regularization. MICCAI Computational Diffusion MRI workshop challenge.

Michael Paquette, Eleftherios Garyfallidis, Samuel St-Jean, Pierrick Coupé, Maxime Descoteaux (2013). Particle Swarm Optimization in Multi-Tensor Imaging. ISBI HARDI reconstruction challenge 2013.

Eleftherios Garyfallidis, Michael Paquette, Samuel St-Jean, Pierrick Coupé, Maxime Descoteaux (2013). Deconvolution enhanced Generalized Q-Sampling 2 and DSI deconvolution. ISBI HARDI reconstruction challenge 2013.

Eleftherios Garyfallidis, Samuel St-Jean, Michael Paquette, Pierrick Coupé, Maxime Descoteaux (2013). Constrained spherical deconvolution on signal and ODF values. HARDI Reconstruction Challenge, International Symposium on Biomedical Imaging.