Analysis Technical Reports

TR08MC1 : The FMRIB Variational Bayes Tutorial (PDF): Michael Chappell, Adrian Groves and Mark Woolrich
TR08SS1 : Threshold-Free Cluster Enhancement: Addressing problems of smoothing, threshold dependence and localisation in cluster inference (PDF): Stephen Smith and Tom Nichols
TR08TN1 : Cluster Analysis Revisited - Again: Implementing Nonstationary Cluster Size Inference (PDF): Tom Nichols

TR07BP1 : Bayesian Shape and Appearance Models (PDF): Brian Patenaude, Stephen Smith, David Kennedy and Mark Jenkinson
TR07JA1 : Non-linear optimisation (PDF): Jesper L. R. Andersson, Mark Jenkinson and Stephen Smith
TR07JA2 : Non-linear registration, aka Spatial normalisation (PDF): Jesper L. R. Andersson, Mark Jenkinson and Stephen Smith

TR06CB1 : Applying FSL to the FIAC data: model-based and model-free analysis of voice and sentence repetition priming (PDF): Christian F. Beckmann, Mark Jenkinson, Mark W. Woolrich, Tim E.J. Behrens, Dave E.F. Flitney, Joseph T. Devlin and Stephen M. Smith
TR06MP1 : MRI-Based Estimation of Brain, Skull and Scalp Surfaces (PDF): Mickael Pechaud, Mark Jenkinson and Stephen M. Smith
TR06SS1 : Meaningful Design and Contrast Estimability in FMRI (PDF): Stephen Smith, Mark Jenkinson, Christian Beckmann, Karla Miller and Mark Woolrich

TR05CB1 : Investigations into Resting-state Connectivity using Independent Component Analysis (PDF): Christian F. Beckmann, Marilena DeLuca, Joseph T. Devlin and Stephen M. Smith
TR05MJ1 : A Bayesian Similarity Function for Segmentation using Anatomical, Shape-Based Models (PS/ PDF/ HTML): Mark Jenkinson
TR05SS1 : Tract-Based Spatial Statistics: Voxelwise Analysis of Multi-Subject Diffusion Data (PDF): Stephen M. Smith, Mark Jenkinson, Heidi Johansen-Berg, Daniel Rueckert, Thomas E. Nichols, Clare Mackay, Kate E. Watkins, Olga Ciccarelli, M. Zaheer Cader, Paul M. Matthews and Timothy E.J. Behrens

TR04CB1 : Tensorial Extensions of Independent Component Analysis for Multi-Subject FMRI Analysis (PS/ PDF/ HTML): Christian F. Beckmann and Stephen M. Smith
TR04MJ1 : A Perturbation Method for BO Field Calculations of Non-Conductive Objects (PS/ PDF/ HTML): Mark Jenkinson, James Wilson and Peter Jezzard
TR04MW1 : Mixture Models with Adaptive Spatial Regularisation for Segmentation with an Application to FMRI Data (PS/ PDF/ HTML): Mark W. Woolrich, Timothy E.J. Behrens, Christian F. Beckmann and Stephen M. Smith
TR04MW2 : Constrained Linear Basis Sets for HRF Modelling Using Variational Bayes (PS/ PDF/ HTML): Mark W. Woolrich, Timothy E.J. Behrens and Stephen M. Smith
TR04SS1 : Variability in FMRI: A Re-Examination of Intersession Differences (PS/ PDF/ HTML): S.M. Smith, C.F. Beckmann, N. Ramnani, M.W. Woolrich, P.R. Bannister, M. Jenkinson, P.M. Matthews, D.J. McGonigle
TR04SS2 : Advances in Functional and Structural MR Image Analysis and Implementation as FSL (PS/ PDF/ HTML): Stephen M. Smith, Mark Jenkinson, Mark W. Woolrich, Christian F. Beckmann, Timothy E.J. Behrens, Heidi Johansen-Berg, Peter R. Bannister, Marilena De Luca, Ivana Drobnjak, David E. Flitney, Rami K. Niazy, James Saunders, John Vickers, Yongyue Zhang, Nicola De Stefano, J. Michael Brady, Paul M. Matthews

TR03TB1 : Characterization and Propagation of Uncertainty in Diffusion Weighted MR images (PS/ PDF/ HTML): T.E.J. Behrens, M.W. Woolrich, M. Jenkinson, H. Johansen-Berg, R.G. Nunes, S. Clare, P.M Matthews, J.M. Brady and S.M. Smith
TR03MW1 : Multi-Level Linear Modelling for FMRI Group Analysis Using Bayesian Inference (PS/ PDF/ HTML): Mark W. Woolrich, Timothy E.J. Behrens, Christian F. Beckmann, Mark Jenkinson and Stephen M. Smith
TR03MW2 : Fully Bayesian Spatio-temporal Modelling of FMRI Data (PS/ PDF/ HTML): Mark W. Woolrich, Mark Jenkinson, J. Michael Brady and Stephen M. Smith

TR02CB1 : Probabilistic Independent Component Analysis for FMRI (PS/ PDF/ HTML): Christian F. Beckmann and Stephen Smith
TR02MJ1 : Improved Methods for the Registration and Motion Correction of Brain Images (PS/ PDF/ HTML): Mark Jenkinson, Peter Bannister, Michael Brady and Stephen Smith

TR01CB1 : General Multi-Level Linear Modelling for Group Analysis in FMRI (PS/ PDF/ HTML): Christian F. Beckmann, Stephen Smith and Mark Jenkinson
TR01DL1 : An introduction to Multiway Methods for Multi-Subject fMRI experiment (PS/ PDF/ HTML): Didier G. Leibovici and Christian F. Beckmann
TR01MJ1 : A Fast, Automated, N-Dimensional Phase Unwrapping Algorithm (PS/ PDF/ HTML): Mark Jenkinson
TR01MJ2 : ICA in FMRI: A Basic Introduction (PS/ PDF/ HTML): Mark Jenkinson and Christian F. Beckmann
TR01MW1 : Temporal Autocorrelation in Univariate Linear Modelling of FMRI Data (PS/ PDF/ HTML): Mark W. Woolrich, Brian D. Ripley, Michael Brady and Stephen M. Smith
TR01SMS1 : Brain Atrophy Analysis Using Single- and Multiple-Time-Point Data (PDF): Stephen M. Smith, Yongyue Zhang, Mark Jenkinson, Jacqueline Chen, P.M. Matthews, Antonio Federico and Nicola De Stefano
TR01YZ1 : An HMRF-EM Algorithm for Partial Volume Segmentation of Brain MRI (PDF): Yongyue Zhang, J. Michael Brady, Stephen M. Smith

TR00DF1 : Cluster Analysis Revisited (PS/ PDF/ HTML): Dave Flitney and Mark Jenkinson
TR00DL2 : Multiway Multidimensional Analysis for Pharmaco-EEG Studies (PS/ PDF/ HTML): Didier G. Leibovici
TR00DL1 : Comparing groups of subjects in fMRI studies: a review of the GLM approach (PS/ PDF/ HTML): Didier G. Leibovici and Stephen Smith
TR00MJ1 : Asymptotic T to Z and F to Z Statistic Transformations (PS/ PDF/ HTML): Mark Jenkinson and Mark W. Woolrich
TR00MJ2 : Optimisation in Robust Linear Registration of Brain Images (PS/ PDF/ HTML): Mark Jenkinson and Stephen M. Smith
TR00MJ3 : Estimation of Smoothness from the Residual Field (PS/ PDF/ HTML): Mark Jenkinson
TR00SMS1 : Measurement of Brain Change Over Time (PDF): Stephen M. Smith, Nicola De Stefano, Mark Jenkinson and Paul M. Matthews
TR00SMS2 : BET: Brain Extraction Tool (PDF): Stephen M. Smith
TR00YZ1 : Hidden Markov Random Field Model and Segmentation of Brain MR Images (PS/ PDF/ HTML): Yongyue Zhang, Stephen M. Smith and Michael Brady

TR99MJ1 : Measuring Transformation Error by RMS Deviation (PS/ PDF/ HTML): Mark Jenkinson

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