This list is far from complete, many more algorithms that have been published in papers are implemented in FieldTrip. If you want to know which paper describes a method in detail and the information is not given here, you can ask on the email discussion list.

If possible, please provide a link to the online version of the manuscript. A link to pubmed or sciencedirect is in general nice, as it allows quick cross-referencing.

If allowed, you can also upload a pdf version to the wiki and provide a link here. Please check Sherpa Romeo for the copyright conditions and whether you are allowed to

- release the publisher version, i.e. the final online pdf version from Elsevier or so
- release a self-archived version, i.e. your own pdf (or word) document as it has been accepted for publication
- not release a copy of the manuscript that is freely available to everyone

Cuffin BN, Cohen D.
*Magnetic fields of a dipole in special volume conductor shapes.*
IEEE Trans Biomed Eng. 1977 Jul;24(4):372-81.

Huang MX, Mosher JC, Leahy RM.
*A sensor-weighted overlapping-sphere head model and exhaustive head model comparison for MEG.*
Phys Med Biol. 1999 Feb;44(2):423-40.

Nolte G.
*The magnetic lead field theorem in the quasi-static approximation and its use for magnetoencephalography forward calculation in realistic volume conductors.*
Phys Med Biol. 2003 Nov 21;48(22):3637-52

R. Kavanagh, T. M. Darccey, D. Lehmann, and D. H. Fender. *Evaluation of methods for three-dimensional localization of electric sources in the human brain.* IEEE Trans Biomed Eng, 25:421-429, 1978.

Cuffin BN, Cohen D. *Comparison of the magnetoencephalogram and electroencephalogram.* Electroencephalogr Clin Neurophysiol. 1979 Aug;47(2):132-46.

Fuchs M, Kastner J, Wagner M, Hawes S, Ebersole J.S.
*A standardized boundary element method volume conductor model.*
Clin Neurophysiol. 2002 May;113(5):702-12.

Oostendorp T, van Oosterom A. *The potential distribution generated by surface
electrodes in inhomogeneous volume conductors of arbitrary shape.* IEEE Trans
Biomed Eng. 1991 May;38(5):409-17.

Van Veen BD, van Drongelen W, Yuchtman M, Suzuki A.
*Localization of brain electrical activity via linearly constrained minimum variance spatial filtering.*
IEEE Trans Biomed Eng. 1997 Sep;44(9):867-80.

Gross J, Kujala J, Hamalainen M, Timmermann L, Schnitzler A, Salmelin R.
*Dynamic imaging of coherent sources: Studying neural interactions in the human
brain.*
Proc Natl Acad Sci USA. 2001 Jan 16;98(2):694-9.

Scherg M.
Fundamentals of dipole source potential analysis.
In: *Auditory evoked magnetic fields and electric potentials.* eds. F. Grandori, M. Hoke and G.L. Romani.
Advances in Audiology, vol. 6. Karger, Basel, pp 40-69, 1990.

Dale AM, Liu AK, Fischl B, Buckner RL, Belliveau JW, Lewine JD, Halgren E (2000): *Dynamic statistical parametric mapping: combining fMRI and MEG to produce high-resolution spatiotemporal maps of cortical activity.* Neuron 26:55-67.

Arthur K. Liu, Anders M. Dale, and John W. Belliveau (2002): *Monte Carlo Simulation Studies of EEG and MEG Localization Accuracy.* Human Brain Mapping 16:47-62.

Fa-Hsuan Lin, Thomas Witzel, Matti S. Hamalainen, Anders M. Dale, John W. Belliveau, and Steven M. Stufflebeam (2004): *Spectral spatiotemporal imaging of cortical oscillations and interactions in the human brain.* NeuroImage 23:582-595.

Mosher JC, Lewis PS, Leahy RM. *Multiple dipole modeling and localization from spatio-temporal MEG data.* IEEE Trans Biomed Eng. 1992 Jun;39(6):541-57.

Mosher JC, Baillet S, Leahy RM. *EEG source localization and imaging using multiple signal classification approaches.* J Clin Neurophysiol. 1999 May;16(3):225-38.

Mitra PP, Pesaran B.
*Analysis of dynamic brain imaging data.*
Biophys J. 1999 Feb;76(2):691-708.

Jarvis MR, Mitra PP.
*Sampling properties of the spectrum and coherency of sequences of action potentials.*
Neural Comput. 2001 Apr;13(4):717-49.

Tallon-Baudry C, Bertrand O, Delpuech C, Permier J.
*Oscillatory gamma-band (30-70 Hz) activity induced by a visual search task in humans.*
J Neurosci. 1997 Jan 15;17(2):722-34.

Knosche TR.
*Transformation of whole-head MEG recordings between different sensor positions.*
Biomed Tech (Berl). 2002 Mar;47(3):59-62.

Stolk A, Todorovic A, Schoffelen J-M, Oostenveld R.
* Online and offline tools for head movement compensation in MEG.
* NeuroImage. 2013.

TF Oostendorp, A van Oosterom.
*The surface Laplacian of the potential: theory and application.*
IEEE Trans Biomed Eng, 43(4): 394-405, 1996.

F. Perrin, J. Pernier, O. Bertrand, and J. F. Echallier.
*Spherical splines for scalp potential and current density mapping.*
Electroencephalogr Clin Neurophysiol, 72:184-187, 1989.

Bastiaansen, M. C. M., & Knösche, T. R. (2000). *MEG tangential derivative
mapping applied to Event-Related Desynchronization (ERD) research.* Clinical Neurophysiology, 111, 1300-1305.

Rosenberg et al. *The Fourier approach to the identification of functional coupling between neuronal spike trains.* Prog Biophys Molec Biol 1989; 53; 1-31

Lachaux et al. Measuring phase sychrony in brain signals. Human Brain Mapping, 1999; 8; 194-208

Rosenberg et al. *Identification of patterns of neuronal connectivity - partial spectra, partial coherence, and neuronal interactions.* J. Neurosci. Methods, 1998; 83; 57-72

Nolte et al. *Identifying true brain interaction from EEG data using the imaginary part of coherence. *
Clinical Neurophysiology, 2004; 115; 2292-2307

Nolte et al. *Robustly estimating the flow direction of information in complex physical systems.*
Physical Review Letters, 2008; 100; 234101

Baccala and Sameshima. *Partial directed coherence: a new concept in neural structure determination.*
Biol. Cybern., 2001; 84; 463-474

Kaminski and Blinowska. *A new method of the description of the information flow in the brain structures.*
Biol. Cybern., 1991; 65; 203-210

Mingzhou Ding, Yonghong Chen, Steven L. Bressler. Granger Causality: Basic Theory and Application to Neuroscience. In: *Handbook of Time Series Analysis*, ed. B. Schelter, M. Winterhalder, and J. Timmer, Wiley-VCH Verlage, 2006: 451-474. arXiv:q-bio/0608035v1

Dhamala M, Rangarajan G, Ding M. *Analyzing information flow in brain networks
with nonparametric Granger causality.* Neuroimage. 2008 Jun;41(2):354-62. Epub
2008 Feb 25. PubMed PMID: 18394927; PubMed Central PMCID: PMC2685256.

Dhamala M, Rangarajan G, Ding M. *Estimating Granger causality from fourier and
wavelet transforms of time series data.* Phys Rev Lett. 2008 Jan 11;100(1):018701.
Epub 2008 Jan 10. PubMed PMID: 18232831.

Vinck M, van Wingerden M, Womelsdorf T, Fries P, Pennartz CM. *The pairwise phase consistency: a bias-free measure of rhythmic neuronal synchronization.* Neuroimage. 2010 May 15;51(1):112-22. Epub 2010 Jan 28. PMID: 20114076

Vinck M, Oostenveld R, van Wingerden M, Battaglia F, Pennartz CM. *An improved index of phase-synchronization for electrophysiological data in the presence of volume-conduction, noise and sample-size bias.* Neuroimage. 2011 Apr 15;55(4):1548-65. Epub 2011 Jan 27. PMID: 21276857

Vinck, M, Battaglia FP, Womelsdorf T, Pennartz CM. *Improved measures of phase-coupling between spikes and the Local Field Potential.* 2011; DOI: 10.1007/s10827-011-0374-4

Maris E. *Statistical Testing in Electrophysiological Studies* Psychophysiology (2012) Vol 49 No 4, pp. 549-65.

Maris E., Oostenveld R. *Nonparametric statistical testing of EEG- and MEG-data.* J Neurosci Methods. 2007 Apr 10;

Maris E., Schoffelen J.M., Fries P. *Nonparametric statistical testing of coherence differences.*
J Neurosci Methods. 2007 Jun 15;163(1):161-75.

Holm S. *A Simple Sequentially Rejective Multiple Test Procedure.* Scandinavian Journal of Statistics, Vol. 6, No. 2 (1979), pp. 65-70.

Hochberg Y. *A Sharper Bonferroni Procedure for Multiple Tests of Significance* Biometrika Vol. 75 No. 4 (1988), pp. 800–802.

Genovese C.R., Lazar N.A., Nichols T. *Thresholding of Statistical Maps in Functional Neuroimaging Using the False Discovery Rate* Neuroimage Vol. 15 No. 4 (2002), pp. 870-8.

Van Gerven, M.A.J., Hesse, C., Jensen, O., Heskes, T. * Interpreting Single Trial Data using Groupwise Regularisation.*
Neuroimage. 2009; 46(3):665-76.

Van Gerven, M.A.J., Jensen, O. *Attention Modulations of Posterior Alpha as a Control Signal for Two-Dimensional Brain-Computer Interfaces.* J Neurosci Methods. 2009; 179:78-84.

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