__'''Preprocessing: Realigning and Unwarping'''__<<BR>>

You can download a copy of Justin and Jo's talks here: [[attachment:Realignment.pdf]] [[attachment:Undistortion.pptx]] <<BR>>


Regarding the question of why two field map images are acquired... this paper is useful in explaining this. Brief extract from the paper ... <<BR>><<BR>>
''A field map can be computed from the phase of the complex image data. By collecting more than one echo spaced in time it is possible to
measure changes in the phase (and therefore the magnetic field) that are independent of imaging gradients and artefacts caused by the excitation pulse. Image
processing techniques are required to convert the phase change map into a map of voxel shifts that can then be used to unwarp the distorted images.'' <<BR>>

[[http://web.mit.edu/swg/ImagingPubs/Motion%20Correction/Hutton.NeuroImage.2002.pdf|Image distortion correction paper]]

__'''Web Resources'''__<<BR>>

Below is a list of web resources used in the talk <<BR>>

[[http://www.fil.ion.ucl.ac.uk/spm/doc/mfd/2009/|SPM for Dummies]]<<BR>>

[[http://www.fmrib.ox.ac.uk/fslcourse/|FSL course]]<<BR>>

[[http://imaging.mrc-cbu.cam.ac.uk/imaging/MriPhysicsAndAnalysisForCognitiveNeuroscientists|CBU Imaging WIKI]]<<BR>>

[[http://psychology.uwo.ca/fmri4newbies/Tutorials.html|fmri4newbies]] <<BR>>
Jody Culham's fMRI for newbies


__'''References'''__<<BR>>

''Undistortion''<<BR>>


Cusack, R., Brett, M. & Osswald, K. (2003) "An evaluation of the use of magnetic field maps to undistort echo-planar images" Neuroimage 18, 127-142.<<BR>>
Cusack, R., & Papadakis, N. (2002) "New robust 3-d phase unwrapping algorithms: application to magnetic field mapping and undistorting echoplanar images" Neuroimage 16, 754-764. <<BR>>
Jezzard, P. and Balaban, R.S. (1995). "Correction for Geometric Distortion in Echo Planar Images from B0 Field Variations" Magnetic Resonance in Medicine 34: 65-73.