references.bib

% Encoding: UTF-8
%
% If available, include a DOI (preferred) *or* a URL for a given reference, but
# not both, as the DOI turns into a link which is redundant with the URL.

% MNE-C reference
@article{GramfortEtAl2014,
  title = {{{MNE}} Software for Processing {{MEG}} and {{EEG}} Data},
  author = {Gramfort, Alexandre and Luessi, Martin and Larson, Eric and Engemann, Denis A. and Strohmeier, Daniel and Brodbeck, Christian and Parkkonen, Lauri and H{\"a}m{\"a}l{\"a}inen, Matti S.},
  year = {2014},
  volume = {86},
  pages = {446--460},
  doi = {10.1016/j.neuroimage.2013.10.027},
  journal = {NeuroImage},
}
% MNE-Python reference
@article{GramfortEtAl2013a,
  title = {{{MEG}} and {{EEG}} Data Analysis with {{MNE}}-{{Python}}},
  author = {Gramfort, Alexandre and Luessi, Martin and Larson, Eric and Engemann, Denis A. and Strohmeier, Daniel and Brodbeck, Christian and Goj, Roman and Jas, Mainak and Brooks, Teon and Parkkonen, Lauri and H{\"a}m{\"a}l{\"a}inen, Matti S.},
  year = {2013},
  volume = {7},
  pages = {1--13},
  doi = {10.3389/fnins.2013.00267},
  journal = {Frontiers in Neuroscience},
  number = {267}
}
% everything else
@article{AblinEtAl2018,
  author = {Ablin, Pierre and Cardoso, Jean-Francois and Gramfort, Alexandre},
  doi = {10.1109/TSP.2018.2844203},
  journal = {IEEE Transactions on Signal Processing},
  number = {15},
  pages = {4040-4049},
  title = {Faster {{Independent Component Analysis}} by Preconditioning with Hessian Approximations},
  volume = {66},
  year = {2018}
}

@article{AcunzoEtAl2012,
  author = {Acunzo, David J. and MacKenzie, Graham and {van Rossum}, Mark C.W.},
  doi = {10.1016/j.jneumeth.2012.06.011},
  journal = {Journal of Neuroscience Methods},
  number = {1},
  pages = {212-218},
  title = {Systematic Biases in Early {{ERP}} and {{ERF}} Components as a Result of High-Pass Filtering},
  volume = {209},
  year = {2012}
}

@article{ArtoniEtAl2018,
  author = {Artoni, Fiorenzo and Delorme, Arnaud and Makeig, Scott},
  doi = {10.1016/j.neuroimage.2018.03.016},
  journal = {NeuroImage},
  pages = {176-187},
  title = {Applying Dimension Reduction to {{EEG}} Data by {{Principal Component Analysis}} Reduces the Quality of Its Subsequent {{Independent Component}} Decomposition},
  volume = {175},
  year = {2018}
}

@article{AvantsEtAl2008,
  author = {Avants, Brian B. and Epstein, Charles L. and Grossman, Murray C. and Gee, James C.},
  doi = {10.1016/j.media.2007.06.004},
  journal = {Medical Image Analysis},
  number = {1},
  pages = {26-41},
  shorttitle = {Symmetric Diffeomorphic Image Registration with Cross-Correlation},
  title = {Symmetric Diffeomorphic Image Registration with Cross-Correlation: Evaluating Automated Labeling of Elderly and Neurodegenerative Brain},
  volume = {12},
  year = {2008}
}

@article{BailletEtAl2001,
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  pages = {14-30},
  title = {Electromagnetic Brain Mapping},
  volume = {18},
  year = {2001}
}

@inproceedings{BarachantEtAl2010,
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  booktitle = {2010 IEEE International Workshop on Multimedia Signal Processing},
  title = {Common Spatial Pattern revisited by {Riemannian} geometry},
  year = {2010},
  pages={472-476},
  doi = {10.1109/MMSP.2010.5662067}
}

@book{Barber2012,
  address = {{Cambridge}},
  author = {Barber, David},
  isbn = {978-0-521-51814-7},
  publisher = {{Cambridge University Press}},
  title = {Bayesian Reasoning and Machine Learning},
  url = {http://www.cs.ucl.ac.uk/staff/d.barber/brml/},
  year = {2012}
}

@inproceedings{BekhtiEtAl2016,
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  author = {Bekhti, Yousra and Strohmeier, Daniel and Jas, Mainak and Badeau, Roland and Gramfort, Alexandre},
  booktitle = {Proceedings of {{PRNI}}-2016},
  doi = {10.1109/PRNI.2016.7552337},
  isbn = {978-1-4673-6530-7},
  pages = {1-4},
  publisher = {{IEEE}},
  title = {M/{{EEG}} Source Localization with Multi-Scale Time-Frequency Dictionaries},
  year = {2016}
}

@article{BellSejnowski1995,
  author = {Bell, Anthony J. and Sejnowski, Terrence J.},
  doi = {10.1162/neco.1995.7.6.1129},
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}

@article{BentivoglioEtAl1997,
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  pages = {1028-1034},
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  volume = {12},
  year = {1997}
}

@article{BergScherg1994,
  author = {Berg, Patrick and Scherg, Michael},
  doi = {10.1016/0013-4694(94)90113-9},
  journal = {Electroencephalography and Clinical Neurophysiology},
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}

@inproceedings{BigdelyShamloEtAl2013,
  author = {Bigdely-Shamlo, Nima and Kreutz-Delgado, Kenneth and Robbins, Kay and Miyakoshi, Makoto and Westerfield, Marissa and Bel-Bahar, Tarik and Kothe, Christian and Hsi, Jessica and Makeig, Scott},
  doi = {10.1109/GlobalSIP.2013.6736796},
  booktitle = {2013 IEEE Global Conference on Signal and Information Processing},
  pages = {1--4},
  title = {Hierarchical event descriptor {(HED)} tags for analysis of event-related {EEG} studies},
  organization = {IEEE},
  year = {2013},
}

@article{BlankertzEtAl2008,
  author = {Blankertz, Benjamin and Tomioka, Ryota and Lemm, Steven and Kawanabe, Motoaki and Müller, Klaus-Robert},
  doi = {10.1109/MSP.2008.4408441},
  journal = {IEEE Signal Processing Magazine},
  number = {1},
  pages = {41-56},
  title = {Optimizing Spatial Filters for Robust {{EEG}} Single-Trial Analysis},
  volume = {25},
  year = {2008}
}

@article{Bookstein1989,
  author = {Bookstein, Fred L.},
  doi = {10.1109/34.24792},
  journal = {IEEE Transactions on Pattern Analysis and Machine Intelligence},
  number = {6},
  pages = {567-585},
  shorttitle = {Principal Warps},
  title = {Principal Warps: Thin-Plate Splines and the Decomposition of Deformations},
  volume = {11},
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}

@article{BrookesEtAl2008,
  author = {Brookes, Matthew J. and Vrba, Jiri and Robinson, Stephen E. and Stevenson, Claire M. and Peters, Andrew M. and Barnes, Gareth R. and Hillebrand, Arjan and Morris, Peter G.},
  doi = {10.1016/j.neuroimage.2007.09.050},
  journal = {NeuroImage},
  number = {4},
  pages = {1788-1802},
  title = {Optimising Experimental Design for {{MEG}} Beamformer Imaging},
  volume = {39},
  year = {2008}
}

@article{BrunaEtAl2018,
  doi = {10.1088/1741-2552/aacfe4},
  year = {2018},
  publisher = {{IOP} Publishing},
  volume = {15},
  number = {5},
  pages = {056011},
  author = {Ricardo Bru{\~{n}}a, Fernando Maest{\'{u}}, Ernesto Pereda},
  title = {Phase locking value revisited: teaching new tricks to an old dog},
  journal = {Journal of Neural Engineering},
}

@techreport{BurdakovMerkulov2001,
  title={On a new norm for data fitting and optimization problems},
  author={Burdakov, Oleg and Merkulov, Boris},
  number={LiTH-MAT-R-2001-29},
  address={Link{\"o}ping},
  institution={Link{\"o}ping University},
  type = {Technical {{Report}}},
  year={2001}
}

@article{CamposViolaEtAl2009,
  author = {Campos Viola, Filipa and Thorne, Jeremy and Edmonds, Barrie and Schneider, Till and Eichele, Tom and Debener, Stefan},
  doi = {10.1016/j.clinph.2009.01.015},
  journal = {Clinical Neurophysiology},
  number = {5},
  pages = {868-877},
  title = {Semi-Automatic Identification of Independent Components Representing {{EEG}} Artifact},
  volume = {120},
  year = {2009}
}

@article{ChambonEtAl2018,
  author = {Chambon, Stanislas and Galtier, Mathieu N. and Arnal, Pierrick J. and Wainrib, Gilles and Gramfort, Alexandre},
  doi = {10.1109/TNSRE.2018.2813138},
  journal = {IEEE Transactions on Neural Systems and Rehabilitation Engineering},
  number = {4},
  pages = {758-769},
  title = {A Deep Learning Architecture for Temporal Sleep Stage Classification Using Multivariate and Multimodal Time Series},
  volume = {26},
  year = {2018}
}

@article{ChenEtAl2010,
  author = {Chen, Yilun and Wiesel, Ami and Eldar, Yonina C. and Hero, Alfred O.},
  doi = {10.1109/TSP.2010.2053029},
  journal = {IEEE Transactions on Signal Processing},
  number = {10},
  pages = {5016-5029},
  title = {Shrinkage Algorithms for {{MMSE}} Covariance Estimation},
  volume = {58},
  year = {2010}
}

@article{CichyEtAl2014,
  author = {Cichy, Radoslaw Martin and Pantazis, Dimitrios and Oliva, Aude},
  doi = {10.1038/nn.3635},
  journal = {Nature Neuroscience},
  number = {3},
  pages = {455-462},
  title = {Resolving Human Object Recognition in Space and Time},
  volume = {17},
  year = {2014}
}

@book{Cohen2014,
  place={Cambridge, MA},
  title={Analyzing Neural Time Series Data: Theory and Practice},
  publisher={MIT Press},
  author={Cohen, Mike X.},
  year={2014}
}

@article{CohenHosaka1976,
  author = {Cohen, David and Hosaka, Hidehiro},
  doi = {10.1016/S0022-0736(76)80041-6},
  journal = {Journal of Electrocardiology},
  number = {4},
  pages = {409-417},
  title = {Part {{II}} Magnetic Field Produced by a Current Dipole},
  volume = {9},
  year = {1976}
}

@article{CrosseEtAl2016,
  author = {Crosse, Michael J. and Di Liberto, Giovanni M. and Bednar, Adam and Lalor, Edmund C.},
  doi = {10.3389/fnhum.2016.00604},
  journal = {Frontiers in Human Neuroscience},
  shorttitle = {The Multivariate Temporal Response Function ({{mTRF}}) Toolbox},
  title = {The Multivariate Temporal Response Function ({{mTRF}}) Toolbox: A {{MATLAB}} Toolbox for Relating Neural Signals to Continuous Stimuli},
  volume = {10},
  year = {2016}
}

@article{DahneEtAl2014,
  author = {Dähne, Sven and Meinecke, Frank C. and Haufe, Stefan and Höhne, Johannes and Tangermann, Michael and Müller, Klaus-Robert and Nikulin, Vadim V.},
  doi = {10.1016/j.neuroimage.2013.07.079},
  journal = {NeuroImage},
  pages = {111-122},
  shorttitle = {{{SPoC}}},
  title = {{{SPoC}}: A Novel Framework for Relating the Amplitude of Neuronal Oscillations to Behaviorally Relevant Parameters},
  volume = {86},
  year = {2014}
}

@article{DalalEtAl2008,
  author = {Dalal, Sarang S. and Guggisberg, Adrian G. and Edwards, Erik and Sekihara, Kensuke and Findlay, Anne M. and Canolty, Ryan T. and Berger, Mitchel S. and Knight, Robert T. and Barbaro, Nicholas M. and Kirsch, Heidi E. and Nagarajan, Srikantan S.},
  doi = {10.1016/j.neuroimage.2008.01.023},
  journal = {NeuroImage},
  number = {4},
  pages = {1686-1700},
  shorttitle = {Five-Dimensional Neuroimaging},
  title = {Five-Dimensional Neuroimaging: Localization of the Time–Frequency Dynamics of Cortical Activity},
  volume = {40},
  year = {2008}
}

@article{DaleEtAl1999,
  author = {Dale, Anders M. and Fischl, Bruce and Sereno, Martin I.},
  doi = {10.1006/nimg.1998.0395},
  journal = {NeuroImage},
  number = {2},
  pages = {179-194},
  title = {Cortical Surface-Based Analysis: {{I}}. Segmentation and Surface Reconstruction},
  volume = {9},
  year = {1999}
}

@article{DaleEtAl2000,
  author = {Dale, Anders M. and Liu, Arthur K. and Fischl, Bruce R. and Buckner, Randy L. and Belliveau, John W. and Lewine, Jeffrey D. and Halgren, Eric},
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  journal = {Neuron},
  number = {1},
  pages = {55-67},
  title = {Dynamic Statistical Parametric Mapping: Combining {{fMRI}} and {{MEG}} for High-Resolution Imaging of Cortical Activity},
  volume = {26},
  year = {2000}
}

@article{DaleSereno1993,
  author = {Dale, Anders M. and Sereno, Martin I.},
  doi = {10.1162/jocn.1993.5.2.162},
  journal = {Journal of Cognitive Neuroscience},
  number = {2},
  pages = {162-176},
  shorttitle = {Improved Localization of Cortical Activity by Combining {{EEG}} and {{MEG}} with {{MRI}} Cortical Surface Reconstruction},
  title = {Improved Localization of Cortical Activity by Combining {{EEG}} and {{MEG}} with {{MRI}} Cortical Surface Reconstruction: A Linear Approach},
  volume = {5},
  year = {1993}
}

@article{DammersEtAl2008,
  author = {Dammers, Jürgen and Schiek, Michael and Boers, Frank and Silex, Carmen and Zvyagintsev, Mikhail and Pietrzyk, Uwe and Mathiak, Klaus},
  doi = {10.1109/TBME.2008.926677},
  journal = {IEEE Transactions on Biomedical Engineering},
  number = {10},
  pages = {2353-2362},
  title = {Integration of Amplitude and Phase Statistics for Complete Artifact Removal in Independent Components of Neuromagnetic Recordings},
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  year = {2008}
}

@article{DarvasEtAl2006,
  author = {Darvas, Felix and Ermer, John J. and Mosher, John C. and Leahy, Richard M.},
  doi = {10.1002/hbm.20171},
  journal = {Human Brain Mapping},
  number = {2},
  pages = {129-143},
  title = {Generic Head Models for Atlas-Based {{EEG}} Source Analysis},
  volume = {27},
  year = {2006}
}

@article{DestrieuxEtAl2010,
  author = {Destrieux, Christophe and Fischl, Bruce and Dale, Anders and Halgren, Eric},
  doi = {10.1016/j.neuroimage.2010.06.010},
  journal = {NeuroImage},
  number = {1},
  pages = {1-15},
  title = {Automatic Parcellation of Human Cortical Gyri and Sulci Using Standard Anatomical Nomenclature},
  volume = {53},
  year = {2010}
}

@article{DufauEtAl2015,
  author = {Dufau, Stéphane and Grainger, Jonathan and Midgley, Katherine J. and Holcomb, Phillip J.},
  doi = {10.1177/0956797615603934},
  journal = {Psychological Science},
  number = {12},
  pages = {1887-1897},
  shorttitle = {A Thousand Words Are Worth a Picture},
  title = {A Thousand Words Are Worth a Picture: Snapshots of Printed-Word Processing in an Event-Related Potential Megastudy},
  volume = {26},
  year = {2015}
}

@book{EfronHastie2016,
  address = {{New York}},
  author = {Efron, Bradley and Hastie, Trevor},
  isbn = {978-1-107-14989-2},
  number = {5},
  publisher = {{Cambridge University Press}},
  series = {Institute of {{Mathematical Statistics}} Monographs},
  shorttitle = {Computer Age Statistical Inference},
  title = {Computer Age Statistical Inference: Algorithms, Evidence, and Data Science},
  url = {https://web.stanford.edu/~hastie/CASI/},
  year = {2016}
}

@article{EngemannGramfort2015,
  author = {Engemann, Denis A. and Gramfort, Alexandre},
  doi = {10.1016/j.neuroimage.2014.12.040},
  journal = {NeuroImage},
  pages = {328-342},
  title = {Automated Model Selection in Covariance Estimation and Spatial Whitening of {{MEG}} and {{EEG}} Signals},
  volume = {108},
  year = {2015}
}

@article{FischlEtAl1999,
  author = {Fischl, Bruce and Sereno, Martin I. and Dale, Anders M.},
  doi = {10.1006/nimg.1998.0396},
  journal = {NeuroImage},
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  pages = {195-207},
  title = {Cortical Surface-Based Analysis: {{II}}. Inflation, Flattening, and a Surface-Based Coordinate System},
  volume = {9},
  year = {1999}
}

@article{FischlEtAl1999a,
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  journal = {Human Brain Mapping},
  number = {4},
  pages = {272-284},
  title = {High-Resolution Intersubject Averaging and a Coordinate System for the Cortical Surface},
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}

@article{FischlEtAl2004,
  author = {Fischl, Bruce and Salat, David H. and {van der Kouwe}, André J.W. and Makris, Nikos and Ségonne, Florent and Quinn, Brian T. and Dale, Anders M.},
  doi = {10.1016/j.neuroimage.2004.07.016},
  journal = {NeuroImage},
  pages = {S69-S84},
  title = {Sequence-Independent Segmentation of Magnetic Resonance Images},
  volume = {23},
  year = {2004}
}

@article{FishburnEtAl2019,
  title={Temporal derivative distribution repair (TDDR): a motion correction method for {fNIRS}},
  doi = {10.1016/j.neuroimage.2018.09.025},
  author={Fishburn, Frank A and Ludlum, Ruth S and Vaidya, Chandan J and Medvedev, Andrei V},
  journal={NeuroImage},
  volume={184},
  pages={171--179},
  year={2019},
  publisher={Elsevier}
}

@article{GlasserEtAl2016,
  author = {Glasser, Matthew F. and Coalson, Timothy S. and Robinson, Emma C. and Hacker, Carl D. and Harwell, John and Yacoub, Essa and Ugurbil, Kamil and Andersson, Jesper and Beckmann, Christian F. and Jenkinson, Mark and Smith, Stephen M. and Van Essen, David C.},
  doi = {10.1038/nature18933},
  journal = {Nature},
  number = {7615},
  pages = {171-178},
  title = {A multi-modal parcellation of human cerebral cortex},
  volume = {536},
  year = {2016}
}

@article{GlasserEtAl2016supp,
  author = {Glasser, Matthew F. and Coalson, Timothy S. and Robinson, Emma C. and Hacker, Carl D. and Harwell, John and Yacoub, Essa and Ugurbil, Kamil and Andersson, Jesper and Beckmann, Christian F. and Jenkinson, Mark and Smith, Stephen M. and Van Essen, David C.},
  url = {https://static-content.springer.com/esm/art%3A10.1038%2Fnature18933/MediaObjects/41586_2016_BFnature18933_MOESM330_ESM.pdf#page=2},
  journal = {Nature},
  number = {7615},
  title = {Supplementary neuroanatomical results for “{A} multi-modal parcellation of human cerebral cortex”},
  volume = {536},
  year = {2016}
}

@article{GoldbergerEtAl2000,
  author = {Goldberger, Ary L. and Amaral, Luis A. N. and Glass, Leon and Hausdorff, Jeffrey M. and Ivanov, Plamen Ch. and Mark, Roger G. and Mietus, Joseph E. and Moody, George B. and Peng, Chung-Kang and Stanley, H. Eugene},
  doi = {10.1161/01.CIR.101.23.e215},
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  number = {23},
  shorttitle = {{{PhysioBank}}, {{PhysioToolkit}}, and {{PhysioNet}}},
  title = {{{PhysioBank}}, {{PhysioToolkit}}, and {{PhysioNet}}: {{Components}} of a New Research Resource for Complex Physiologic Signals},
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}

@article{GoldenholzEtAl2009,
  author = {Goldenholz, Daniel M. and Ahlfors, Seppo P. and Hämäläinen, Matti S. and Sharon, Dahlia and Ishitobi, Mamiko and Vaina, Lucia M. and Stufflebeam, Steven M.},
  doi = {10.1002/hbm.20571},
  journal = {Human Brain Mapping},
  number = {4},
  pages = {1077-1086},
  title = {Mapping the Signal-to-Noise-Ratios of Cortical Sources in Magnetoencephalography and Electroencephalography},
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  year = {2009}
}

@article{GoncalvesEtAl2003,
  author = {Gonçalves, Sónia I. and {de Munck}, Jan Casper and Verbunt, Jeroen P. A. and Bijma, Fetsje and Heethaar, Rob M. and {Lopes da Silva}, Fernando},
  doi = {10.1109/TBME.2003.812164},
  journal = {IEEE Transactions on Biomedical Engineering},
  number = {6},
  pages = {754-767},
  title = {In Vivo Measurement of the Brain and Skull Resistivities Using an {{EIT}}-Based Method and Realistic Models for the Head},
  volume = {50},
  year = {2003}
}

@article{GraimannEtAl2002,
  author = {Graimann, Bernhard and Huggins, Jane E. and Levine, Simon P. and Pfurtscheller, Gert},
  doi = {10.1016/S1388-2457(01)00697-6},
  journal = {Clinical Neurophysiology},
  number = {1},
  pages = {43-47},
  title = {Visualization of Significant {{ERD}}/{{ERS}} Patterns in Multichannel {{EEG}} and {{ECoG}} Data},
  volume = {113},
  year = {2002}
}

@article{GramfortEtAl2010,
  author = {Alexandre Gramfort and Renaud Keriven and Maureen Clerc},
  title = {Graph-Based Variability Estimation in Single-Trial Event-Related Neural Responses},
  journal = {{IEEE} Transactions on Biomedical Engineering},
  doi = {10.1109/tbme.2009.2037139},
  year = {2010},
  publisher = {Institute of Electrical and Electronics Engineers ({IEEE})},
  volume = {57},
  number = {5},
  pages = {1051--1061},
}

@incollection{GramfortEtAl2011,
  address = {{Berlin; Heidelberg}},
  author = {Gramfort, Alexandre and Strohmeier, Daniel and Haueisen, Jens and Hämäläinen, Matti S. and Kowalski, Matthieu},
  booktitle = {Information {{Processing}} in {{Medical Imaging}}},
  doi = {10.1007/978-3-642-22092-0_49},
  editor = {Székely, Gábor and Hahn, Horst K.},
  isbn = {978-3-642-22091-3 978-3-642-22092-0},
  pages = {600-611},
  publisher = {Springer},
  title = {Functional Brain Imaging with {M/EEG} Using Structured Sparsity in Time-Frequency Dictionaries},
  volume = {6801},
  year = {2011}
}

@article{GramfortEtAl2012,
  author = {Gramfort, Alexandre and Kowalski, Matthieu and Hämäläinen, Matti S.},
  doi = {10.1088/0031-9155/57/7/1937},
  journal = {Physics in Medicine and Biology},
  number = {7},
  pages = {1937-1961},
  title = {Mixed-Norm Estimates for the {M/EEG} Inverse Problem Using Accelerated Gradient Methods},
  volume = {57},
  year = {2012}
}

@article{GramfortEtAl2013b,
  author = {Gramfort, Alexandre and Strohmeier, Daniel T. and Haueisen, Jens and Hämäläinen, Matti S. and Kowalski, Matthieu},
  doi = {10.1016/j.neuroimage.2012.12.051},
  journal = {NeuroImage},
  pages = {410-422},
  shorttitle = {Time-Frequency Mixed-Norm Estimates},
  title = {Time-Frequency Mixed-Norm Estimates: Sparse {M/EEG} Imaging with Non-Stationary Source Activations},
  volume = {70},
  year = {2013}
}

@article{GreveEtAl2013,
  author = {Greve, Douglas N. and {Van der Haegen}, Lise and Cai, Qing and Stufflebeam, Steven and Sabuncu, Mert R. and Fischl, Bruce and Brysbaert, Marc},
  doi = {10.1162/jocn_a_00405},
  journal = {Journal of Cognitive Neuroscience},
  number = {9},
  pages = {1477-1492},
  title = {A Surface-Based Analysis of Language Lateralization and Cortical Asymmetry},
  volume = {25},
  year = {2013}
}

@article{Grosse-WentrupBuss2008,
  author = {{Grosse-Wentrup}, Moritz and Buss, Martin},
  doi = {10.1109/TBME.2008.921154},
  journal = {IEEE Transactions on Biomedical Engineering},
  number = {8},
  pages = {1991-2000},
  title = {Multiclass Common Spatial Patterns and Information Theoretic Feature Extraction},
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