Dipy, a library for the analysis of diffusion MRI data

Eleftherios Garyfallidis and Matthew Brett and Bagrat Amirbekian and Ariel Rokem and Stefan Van Der Walt and Maxime Descoteaux and Ian Nimmo-Smith and Dipy Contributors

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Tractometer: towards validation of tractography pipelines

Marc-Alexandre Côté and Gabriel Girard and Arnaud Boré and Eleftherios Garyfallidis and Jean-Christophe Houde and Maxime Descoteaux

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Quickbundles, a method for tractography simplification

Eleftherios Garyfallidis and Matthew Brett and Marta Morgado Correia and Guy B Williams and Ian Nimmo-Smith

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Quantitative comparison of reconstruction methods for intra-voxel fiber recovery from diffusion MRI

Alessandro Daducci and Erick Jorge Canales-Rodrı and Maxime Descoteaux and Eleftherios Garyfallidis and Yaniv Gur and Ying-Chia Lin and Merry Mani and Sylvain Merlet and Michael Paquette and Alonso Ramirez-Manzanares and Marco Reisert and Paulo Reis Rodrigues and Farshid Sepehrband and Emmanuel Caruyer and Jeiran Choupan and Rachid Deriche and Mathews Jacob and Gloria Menegaz and Vesna Prčkovska and Mariano Rivera and Yves Wiaux and Jean-Philippe Thiran

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Extracting biomarkers of autism from MEG resting-state functional connectivity networks

Vassilis Tsiaras and Panagiotis G Simos and Roozbeh Rezaie and Bhavin R Sheth and Eleftherios Garyfallidis and Eduardo M Castillo and Andrew C Papanicolaou

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Reduced brain white matter integrity in trichotillomania: a diffusion tensor imaging study

Samuel R Chamberlain and Adam Hampshire and Lara A Menzies and Eleftherios Garyfallidis and Jon E Grant and Brian L Odlaug and Kevin Craig and Naomi Fineberg and Barbara J Sahakian

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Ph.D Thesis : Towards an accurate brain tractography

Eleftherios Garyfallidis

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Dipy–a novel software library for diffusion MR and tractography

Eleftherios Garyfallidis and Matthew Brett and Bagrat Amirbekian and Christopher Nguyen and Fang-Cheng Yeh and Y Halchenko and I Nimmo-Smith

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Robust and efficient linear registration of white-matter fascicles in the space of streamlines

Eleftherios Garyfallidis and Omar Ocegueda and Demian Wassermann and Maxime Descoteaux

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Dynamic changes in white matter abnormalities correlate with late improvement and deterioration following TBI: a diffusion tensor imaging study

Virginia FJ Newcombe and Marta M Correia and Christian Ledig and Maria G Abate and Joanne G Outtrim and Doris Chatfield and Thomas Geeraerts and Anne E Manktelow and Eleftherios Garyfallidis and John D Pickard and Barbara J Sahakian and Peter JA Hutchinson and Daniel Rueckert and Jonathan P Coles and Guy B Williams and David K Menon

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The approximation of the dissimilarity projection

Emanuele Olivetti and Thien Bao Nguyen and Eleftherios Garyfallidis

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Fast clustering for interactive tractography segmentation

Emanuele Olivetti and Thien Bao Nguyen and Eleftherios Garyfallidis and Nivedita Agarwal and Paolo Avesani

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Cleaning up the mess: tractography outlier removal using hierarchical QuickBundles clustering

Marc-Alexandre Côté and Eleftherios Garyfallidis and Hugo Larochelle and Maxime Descoteaux

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Fast dimensionality reduction for brain tractography clustering

Eleftherios Garyfallidis and Matthew Brett and Ian Nimmo-Smith

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Tractography-based connectomes are dominated by false-positive connections. bioRxiv

Klaus Maier-Hein and Peter Neher and Jean-Christophe Houde and Marc-Alexandre Cote and Eleftherios Garyfallidis and Jidan Zhong and Maxime Chamberland and Fang-Cheng Yeh and Ying Chia Lin and Qing Ji

Tractography-based connectomes are dominated by false-positive connections

Klaus Maier-Hein and Peter Neher and Jean-Christophe Houde and Marc-Alexandre Cote and Eleftherios Garyfallidis and Jidan Zhong and Maxime Chamberland and Fang-Cheng Yeh and Ying Chia Lin and Qing Ji and Wilburn E Reddick and John O Glass and David Qixiang Chen and Yuanjing Feng and Chengfeng Gao and Ye Wu and Jieyan Ma and He Renjie and Qiang Li and Carl-Fredrik Westin and Samuel Deslauriers-Gauthier and J Omar Ocegueda Gonzalez and Michael Paquette and Samuel St-Jean and Gabriel Girard and Francois Rheault and Jasmeen Sidhu and Chantal MW Tax and Fenghua Guo and Hamed Y Mesri and Szabolcs David and Martijn Froeling and Anneriet M Heemskerk and Alexander Leemans and Arnaud Bore and Basile Pinsard and Christophe Bedetti and Matthieu Desrosiers and Simona Brambati and Julien Doyon and Alessia Sarica and Roberta Vasta and Antonio Cerasa and Aldo Quattrone and Jason Yeatman and Ali R Khan and Wesley Hodges and Simon Alexander and Darcvi Romascano and Muhamed Barakovic and Anna Auria and Oscar Esteban and Alia Lemkaddem and Jean-Philippe Thiran and H Ertan Cetingul and Benjamin L Odry and Boris Mailhe and Mariappan Nadar and Fabrizio Pizzagalli and Gautam Prasad and Julio Villalon-Reina and Justin Galvis and Paul Thompson and Francisco Requejo and Pedro Laguna and Luis Lacerda and Rachel Barrett and Flavio Dell'Acqua and Marco Catani and Laurent Petit and Emmanuel Caruyer and Alessandro Daducci and Tim Dyrby and Tim Holland-Letz and Claus Hilgetag and Bram Stieltjes and Maxime Descoteaux

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Tract-profiling and bundle statistics: a test-retest validation study

Martin Cousineau and Eleftherios Garyfallidis and Marc-Alexandre Côté and Pierre-Marc Jodoin and Maxime Descoteaux

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Tractome: a visual data mining tool for brain connectivity analysis

Diana Porro-Muñoz and Emanuele Olivetti and Nusrat Sharmin and Thien Bao Nguyen and Eleftherios Garyfallidis and Paolo Avesani

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Comparison between discrete and continuous propagator indices from cartesian q-space dsi sampling

Mauro Zucchelli and Eleftherios Garyfallidis and Michael Paquette and Sylvain Merlet and Gloria Menegaz and Maxime Descoteaux

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Semi-Automatic Segmentation of Optic Radiations and LGN, and Their Relationship to EEG Alpha Waves

Emmanuelle Renauld and Maxime Descoteaux and Michaël Bernier and Eleftherios Garyfallidis and Kevin Whittingstall

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A hybrid approach for optimal automatic segmentation of white matter tracts in hardi

Amira Chekir and Maxime Descoteaux and Eleftherios Garyfallidis and Marc-Alexandre Côté and Fatima Oulebsir Boumghar

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QuickBundlesX: sequential clustering of millions of streamlines in multiple levels of detail at record execution time

Eleftherios Garyfallidis and Marc-Alexandre Côté and François Rheault and Maxime Descoteaux

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Localizing and characterizing single fiber populations throughout the brain

Chantal MW Tax and Dmitry S Novikov and Eleftherios Garyfallidis and Max A Viergever and Maxime Descoteaux and Alexander Leemans

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Direct native-space fiber bundle alignment for group comparisons

Eleftherios Garyfallidis and Demian Wassermann and Maxime Descoteaux

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Constrained spherical deconvolution on signal and ODF values

Eleftherios Garyfallidis and Samuel St-Jean and Michael Paquette and Pierrick Coupé and Maxime Descoteaux

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Identification of corresponding tracks in diffusion MRI tractographies

Eleftherios Garyfallidis and Matthew Brett and Vassilis Tsiaras and George Vogiatzis and Ian Nimmo-Smith

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On the computation of integrals over fixed-size rectangles of arbitrary dimension

Omar Ocegueda and Oscar Dalmau and Eleftherios Garyfallidis and Maxime Descoteaux and Mariano Rivera

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False positive bundles in tractography

Maxime Descoteaux and Jasmeen Sidhu and Eleftherios Garyfallidis and Jean-Christophe Houde and Peter Neher and Bram Stieltjes and Klaus H Maier-Hein

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Deconvolution enhanced Generalized Q-Sampling 2 and DSI deconvolution

Eleftherios Garyfallidis and Michael Paquette and Samuel St-Jean and Pierrick Coupé and Maxime Descoteaux

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Recognition of white matter bundles using local and global streamline-based registration and clustering

Eleftherios Garyfallidis and Marc-Alexandre Côté and Francois Rheault and Jasmeen Sidhu and Janice Hau and Laurent Petit and David Fortin and Stephen Cunanne and Maxime Descoteaux

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3D-SSF: A bio-inspired approach for dynamic multi-subject clustering of white matter tracts

A Chekir and Salima Hassas and Maxime Descoteaux and M Côté and Eleftherios Garyfallidis and Fatima Oulebsir-Boumghar

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To appear in: Computers in Biology and Medicine

A Chekir and S Hassas and M Descoteaux and M Côté and E Garyfallidis and F Oulebsir-Boumghar

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[Re] Optimization of a free water elimination two-compartment model for diffusion tensor imaging.

Rafael Neto Henriques and Ariel Rokem and Eleftherios Garyfallidis and Samuel St-Jean and Eric Thomas Peterson and Marta Correia

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NeuroView: a customizable browser-base utility

Anibal Sólon Heinsfeld and Alexandre Rosa Franco and Augusto Buchweitz and Felipe Meneguzzi

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2015 Brainhack Proceedings

R Cameron Craddock and Pierre Bellec and Daniel S Margules and B Nolan Nichols and Jörg P Pfannmöller and AmanPreet Badhwar and David Kennedy and Jean-Baptiste Poline and Roberto Toro and Ben Cipollini and Ariel Rokem and Daniel Clark and Krzysztof J Gorgolewski and Daniel J Clark and Samir Das and Cécile Madjar and Ayan Sengupta and Zia Mohades and Sebastien Dery and Weiran Deng and Eric Earl and Damion V Demeter and Kate Mills and Glad Mihai and Luka Ruzic and Nick Ketz and Andrew Reineberg and Marianne C Reddan and Anne-Lise Goddings and Javier Gonzalez-Castillo and Caroline Froehlich and Gil Dekel and Daniel S Margulies and Ben D Fulcher and Tristan Glatard and Reza Adalat and Natacha Beck and Rémi Bernard and Najmeh Khalili-Mahani and Pierre Rioux and Marc-Étienne Rousseau and Alan C Evans and Yaroslav O Halchenko and Matteo Visconti di Oleggio Castello and Raúl Hernández-Pérez and Edgar A Morales and Laura V Cuaya and Kaori L Ito and Sook-Lei Liew and Hans J Johnson and Erik Kan and Julia Anglin and Michael Borich and Neda Jahanshad and Paul Thompson and Marcel Falkiewicz and Julia M Huntenburg and David O’Connor and Michael P Milham and Ramon Fraga Pereira and Anibal Sólon Heinsfeld and Alexandre Rosa Franco and Augusto Buchweitz and Felipe Meneguzzi and Rickson Mesquita and Luis CT Herrera and Daniela Dentico and Vanessa Sochat and Julio E Villalon-Reina and Eleftherios Garyfallidis

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Fast implementations of contextual PDE's for HARDI data processing in DIPY

SPL Meesters and GR Sanguinetti and Eleftherios Garyfallidis and JM Portegies and Remco Duits

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Cleaning output of tractography via fiber to bundle coherence, a new open source implementation

SPL Meesters and GR Sanguinetti and Eleftherios Garyfallidis and JM Portegies and PPW Ossenblok and Remco Duits

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Particle Swarm Optimization in Multi-Tensor Imaging

Micheal Paquette and Eleftherios Garyfallidis and Samuel St-Jean and Pierrick Coupé and Maxime Descoteaux

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D21 Manual Segmentation of Fiber Tracts with Bundles of Interest

Paolo Avesani and Eleftherios Garyfallidis and Emanuele Olivetti and Stephan Gerhard

Robustness of diffusion scalar metrics when estimated with Generalized Q-Sampling Imaging acquisition schemes

MM Correia and GB Williams and F Yeh and I Nimmo-Smith and E Garyfallidis

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Multiple-scale Visualization of Large Data based on Hierarchical Clustering

Thien Bao Nguyen and Emanuele Olivetti and Eleftherios Garyfallidis and Nivedita Agarwal and Paolo Avesani

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brainhack

Julio E Villalon-Reina and Eleftherios Garyfallidis

Cartesian 3D-SHORE with Laplacian Regularization

Gonzalo Sanguinetti and Samuel St-Jean and Eleftherios Garyfallidis and Maxime Descoteaux

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An algorithm and quantitative evaluation framework for registration of multi-modal brain MRI

Omar Ocegueda and Eleftherios Garyfallidis and Maxime Descoteaux and Mariano Rivera

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Spherical Deconvolution on single shell and multishell combined with denoising

Samuel St-Jean and Michael Paquette and Eleftherios Garyfallidis and Maxime Descoteaux

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Cartesian 3D-SHORE with Laplacian Regularization

Michael Paquette and Gonzalo Sanguinetti and Samuel St-Jean and Eleftherios Garyfallidis and Maxime Descoteaux

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The challenge of mapping the human connectome based on diffusion tractography

Klaus H. Maier-Hein, Peter F. Neher, Jean-Christophe Houde, Marc-Ale Marc-Alexandre Côté, Eleftherios Garyfallidis, Jidan Zhong, Maxime Chamberland, [...] ,Maxime Descoteaux

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