ACID Toolbox for SPM8

Version 1.0, 2822 August 2012
Copyright (C) 2010 Wellcome Trust Centre for Neuroimaging, UCL, London
Siawoosh Mohammadi (siawoosh.mohammadi@ucl.ac.uk)


LICENCE

The ACID toolbox is free but copyright software, distributed under the terms of the GNU General Public Licence as published by the Free Software
Foundation (either version 2, as given in file LICENCE.txt,
or at your option, any later version). Further details on "copyleft"
can be found at http://www.gnu.org/copyleft/.

NOTE

This toolbox comes with absolutely NO WARRANTY! It is especially not intended for any clinical or diagnostic use.

GETTING STARTED

The toolbox requires Matlab and SPM8 to be installed on your computer. After downloading the toolbox archive, extract the files into your SPM/toolbox directory. 

The archive contains three C-file "spm_hist2_z_exp_polyval2.c", "DTtoFA_nachHBM2010.c", "DTtoFA_2d.c", and "DTI2EVEW.c",  which possibly have to be compiled before using. In order to do this, launch Matlab in the directory SPM/toolbox/ACID_tools/cfiles. Start the compilation by entering the command

mex spm_hist2_z_exp_polyval2.c
mex DTtoFA_nachHBM2010.c

mex DTtoFA_2d.c
mex DTI2EVEW.c

REFERENCES

Eddy current and motion correction tool:
Mohammadi S, Moller HE, Kugel H, Muller DK, Deppe M (2010) Correcting eddy current and motion effects by affine whole-brain registrations: evaluation of three-dimensional distortions and comparison with slicewise correction. Magn Reson Med 64: 1047-1056.

Robust fitting tool:
Mohammadi S, Hutton C, Nagy Z, Josephs O, Weiskopf N (2012), Retrospective correction of physiological noise in DTI using an extended tensor model and peripheral measurements. Magnetic Resonance in Medicine; doi: 10.1002/mrm.24467 (in press).

COVIPER tool:
Mohammadi S, Nagy Z, Hutton C, Josephs O, Weiskopf N (2011), Correction of vibration artifacts in DTI using phase-encoding reversal (COVIPER). Magnetic Resonance in Medicine. doi: 10.1002/mrm.23308.

LPF tool:
Mohammadi S, Nagy Z, Mšller HE, Symms MR, Carmichael DW, Josephs O, Weiskopf N (2012), The effect of local perturbation fields on human DTI: Characterisation, measurement and correction. NeuroImage 60 (1): 562-570.

