FetMRQC: an open-source machine learning framework for multi-centric fetal brain MRI quality control

1 code implementation • 8 Nov 2023 • Thomas Sanchez, Oscar Esteban, Yvan Gomez, Alexandre Pron, Mériam Koob, Vincent Dunet, Nadine Girard, Andras Jakab, Elisenda Eixarch, Guillaume Auzias, Meritxell Bach Cuadra

We present FetMRQC, an open-source machine-learning framework for automated image quality assessment and quality control that is robust to domain shifts induced by the heterogeneity of clinical data.

Image Quality Assessment

The Past, Present, and Future of the Brain Imaging Data Structure (BIDS)

no code implementations • 11 Sep 2023 • Russell A. Poldrack, Christopher J. Markiewicz, Stefan Appelhoff, Yoni K. Ashar, Tibor Auer, Sylvain Baillet, Shashank Bansal, Leandro Beltrachini, Christian G. Benar, Giacomo Bertazzoli, Suyash Bhogawar, Ross W. Blair, Marta Bortoletto, Mathieu Boudreau, Teon L. Brooks, Vince D. Calhoun, Filippo Maria Castelli, Patricia Clement, Alexander L Cohen, Julien Cohen-Adad, Sasha D'Ambrosio, Gilles de Hollander, María de la iglesia-Vayá, Alejandro de la Vega, Arnaud Delorme, Orrin Devinsky, Dejan Draschkow, Eugene Paul Duff, Elizabeth Dupre, Eric Earl, Oscar Esteban, Franklin W. Feingold, Guillaume Flandin, anthony galassi, Giuseppe Gallitto, Melanie Ganz, Rémi Gau, James Gholam, Satrajit S. Ghosh, Alessio Giacomel, Ashley G Gillman, Padraig Gleeson, Alexandre Gramfort, Samuel Guay, Giacomo Guidali, Yaroslav O. Halchenko, Daniel A. Handwerker, Nell Hardcastle, Peer Herholz, Dora Hermes, Christopher J. Honey, Robert B. Innis, Horea-Ioan Ioanas, Andrew Jahn, Agah Karakuzu, David B. Keator, Gregory Kiar, Balint Kincses, Angela R. Laird, Jonathan C. Lau, Alberto Lazari, Jon Haitz Legarreta, Adam Li, Xiangrui Li, Bradley C. Love, Hanzhang Lu, Camille Maumet, Giacomo Mazzamuto, Steven L. Meisler, Mark Mikkelsen, Henk Mutsaerts, Thomas E. Nichols, Aki Nikolaidis, Gustav Nilsonne, Guiomar Niso, Martin Norgaard, Thomas W Okell, Robert Oostenveld, Eduard Ort, Patrick J. Park, Mateusz Pawlik, Cyril R. Pernet, Franco Pestilli, Jan Petr, Christophe Phillips, Jean-Baptiste Poline, Luca Pollonini, Pradeep Reddy Raamana, Petra Ritter, Gaia Rizzo, Kay A. Robbins, Alexander P. Rockhill, Christine Rogers, Ariel Rokem, Chris Rorden, Alexandre Routier, Jose Manuel Saborit-Torres, Taylor Salo, Michael Schirner, Robert E. Smith, Tamas Spisak, Julia Sprenger, Nicole C. Swann, Martin Szinte, Sylvain Takerkart, Bertrand Thirion, Adam G. Thomas, Sajjad Torabian, Gael Varoquaux, Bradley Voytek, Julius Welzel, Martin Wilson, Tal Yarkoni, Krzysztof J. Gorgolewski

The Brain Imaging Data Structure (BIDS) is a community-driven standard for the organization of data and metadata from a growing range of neuroscience modalities.

FetMRQC: Automated Quality Control for fetal brain MRI

1 code implementation • 12 Apr 2023 • Thomas Sanchez, Oscar Esteban, Yvan Gomez, Elisenda Eixarch, Meritxell Bach Cuadra

Quality control (QC) has long been considered essential to guarantee the reliability of neuroimaging studies.

Image Quality Assessment

Differentiable programming for functional connectomics

1 code implementation • 31 May 2022 • Rastko Ciric, Armin W. Thomas, Oscar Esteban, Russell A. Poldrack

We introduce a new analytic paradigm and software toolbox that implements common operations used in functional connectomics as fully differentiable processing blocks.

Denoising

Towards automated brain aneurysm detection in TOF-MRA: open data, weak labels, and anatomical knowledge

1 code implementation • 10 Mar 2021 • Tommaso Di Noto, Guillaume Marie, Sebastien Tourbier, Yasser Alemán-Gómez, Oscar Esteban, Guillaume Saliou, Meritxell Bach Cuadra, Patric Hagmann, Jonas Richiardi

Here, we present a DL model for aneurysm detection that overcomes the issue with ''weak'' labels: oversized annotations which are considerably faster to create.

Anomaly Detection

MBIS: Multivariate Bayesian Image Segmentation Tool

1 code implementation • 2 Apr 2014 • Oscar Esteban, Gert Wollny, Subrahmanyam Gorthi, Maria-J. Ledesma-Carbayo, Jean-Philippe Thiran, Andres Santos, Meritxell Bach-Cuadra

MBIS supports multi-channel bias field correction based on a B-spline model.

Clustering Image Segmentation +2