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Gaël Varoquaux


How I failed machine learning in medical imaging -- shortcomings and recommendations

Mar 18, 2021
Gaël Varoquaux, Veronika Cheplygina

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Accounting for Variance in Machine Learning Benchmarks

Mar 01, 2021
Xavier Bouthillier, Pierre Delaunay, Mirko Bronzi, Assya Trofimov, Brennan Nichyporuk, Justin Szeto, Naz Sepah, Edward Raff, Kanika Madan, Vikram Voleti, Samira Ebrahimi Kahou, Vincent Michalski, Dmitriy Serdyuk, Tal Arbel, Chris Pal, Gaël Varoquaux, Pascal Vincent

* Submitted to MLSys2021 

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A Lightweight Neural Model for Biomedical Entity Linking

Dec 16, 2020
Lihu Chen, Gaël Varoquaux, Fabian M. Suchanek

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Neumann networks: differential programming for supervised learning with missing values

Jul 03, 2020
Marine Le Morvan, Julie Josse, Thomas Moreau, Erwan Scornet, Gaël Varoquaux

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Fine-grain atlases of functional modes for fMRI analysis

Mar 05, 2020
Kamalaker Dadi, Gaël Varoquaux, Antonia Machlouzarides-Shalit, Krzysztof J. Gorgolewski, Demian Wassermann, Bertrand Thirion, Arthur Mensch

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NeuroQuery: comprehensive meta-analysis of human brain mapping

Feb 21, 2020
Jérôme Dockès, Russell Poldrack, Romain Primet, Hande Gözükan, Tal Yarkoni, Fabian Suchanek, Bertrand Thirion, Gaël Varoquaux

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Linear predictor on linearly-generated data with missing values: non consistency and solutions

Feb 03, 2020
Marine Le Morvan, Nicolas Prost, Julie Josse, Erwan Scornet, Gaël Varoquaux

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Encoding high-cardinality string categorical variables

Jul 17, 2019
Patricio Cerda, Gaël Varoquaux

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On the consistency of supervised learning with missing values

Mar 25, 2019
Julie Josse, Nicolas Prost, Erwan Scornet, Gaël Varoquaux

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Extracting Universal Representations of Cognition across Brain-Imaging Studies

Oct 19, 2018
Arthur Mensch, Julien Mairal, Bertrand Thirion, Gaël Varoquaux

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Approximate message-passing for convex optimization with non-separable penalties

Sep 17, 2018
Andre Manoel, Florent Krzakala, Gaël Varoquaux, Bertrand Thirion, Lenka Zdeborová

* 18 pages, 6 figures 

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Text to brain: predicting the spatial distribution of neuroimaging observations from text reports

Jun 28, 2018
Jérôme Dockès, Demian Wassermann, Russell Poldrack, Fabian Suchanek, Bertrand Thirion, Gaël Varoquaux

* MICCAI 2018 - 21st International Conference on Medical Image Computing and Computer Assisted Intervention, Sep 2018, Granada, Spain. pp.1-18, 2018 

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Scikit-learn: Machine Learning in Python

Jun 05, 2018
Fabian Pedregosa, Gaël Varoquaux, Alexandre Gramfort, Vincent Michel, Bertrand Thirion, Olivier Grisel, Mathieu Blondel, Andreas Müller, Joel Nothman, Gilles Louppe, Peter Prettenhofer, Ron Weiss, Vincent Dubourg, Jake Vanderplas, Alexandre Passos, David Cournapeau, Matthieu Brucher, Matthieu Perrot, Édouard Duchesnay

* Journal of Machine Learning Research (2011) 
* Update authors list and URLs 

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Similarity encoding for learning with dirty categorical variables

Jun 04, 2018
Patricio Cerda, Gaël Varoquaux, Balázs Kégl

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Recursive nearest agglomeration (ReNA): fast clustering for approximation of structured signals

Mar 19, 2018
Andrés Hoyos-Idrobo, Gaël Varoquaux, Jonas Kahn, Bertrand Thirion

* IEEE Transactions on Pattern Analysis and Machine Intelligence, Institute of Electrical and Electronics Engineers, In press 

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Learning Neural Representations of Human Cognition across Many fMRI Studies

Nov 11, 2017
Arthur Mensch, Julien Mairal, Danilo Bzdok, Bertrand Thirion, Gaël Varoquaux

* Advances in Neural Information Processing Systems, Dec 2017, Long Beach, United States. 2017 

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Learning to Discover Sparse Graphical Models

Aug 03, 2017
Eugene Belilovsky, Kyle Kastner, Gaël Varoquaux, Matthew Blaschko

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Cross-validation failure: small sample sizes lead to large error bars

Jun 23, 2017
Gaël Varoquaux

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Subsampled online matrix factorization with convergence guarantees

Nov 30, 2016
Arthur Mensch, Julien Mairal, Gaël Varoquaux, Bertrand Thirion

* 9th NIPS Workshop on Optimization for Machine Learning, Dec 2016, Barcelone, Spain 

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Deriving reproducible biomarkers from multi-site resting-state data: An Autism-based example

Nov 18, 2016
Alexandre Abraham, Michael Milham, Adriana Di Martino, R. Cameron Craddock, Dimitris Samaras, Bertrand Thirion, Gaël Varoquaux

* in NeuroImage, Elsevier, 2016 

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Testing for Differences in Gaussian Graphical Models: Applications to Brain Connectivity

Nov 18, 2016
Eugene Belilovsky, Gaël Varoquaux, Matthew B. Blaschko

* Neural Information Processing Systems (NIPS) 2016, Dec 2016, Barcelona, Spain 

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Assessing and tuning brain decoders: cross-validation, caveats, and guidelines

Nov 07, 2016
Gaël Varoquaux, Pradeep Reddy Raamana, Denis Engemann, Andrés Hoyos-Idrobo, Yannick Schwartz, Bertrand Thirion

* NeuroImage, Elsevier, 2016 

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Social-sparsity brain decoders: faster spatial sparsity

Jun 21, 2016
Gaël Varoquaux, Matthieu Kowalski, Bertrand Thirion

* in Pattern Recognition in NeuroImaging, Jun 2016, Trento, Italy. 2016 

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Dictionary Learning for Massive Matrix Factorization

May 26, 2016
Arthur Mensch, Julien Mairal, Bertrand Thirion, Gaël Varoquaux

* Proceedings of the International Conference on Machine Learning, 2016, pp 1737-1746 

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Compressed Online Dictionary Learning for Fast fMRI Decomposition

Feb 08, 2016
Arthur Mensch, Gaël Varoquaux, Bertrand Thirion

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FAASTA: A fast solver for total-variation regularization of ill-conditioned problems with application to brain imaging

Dec 22, 2015
Gaël Varoquaux, Michael Eickenberg, Elvis Dohmatob, Bertand Thirion

* Colloque GRETSI, Sep 2015, Lyon, France. Gretsi, 2015, 

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Mapping cognitive ontologies to and from the brain

Nov 20, 2013
Yannick Schwartz, Bertrand Thirion, Gaël Varoquaux

* NIPS (Neural Information Processing Systems), United States (2013) 

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