The Artefact correction in diffusion MRI (ACID)
toolbox is an academic software toolkit for pre-processing of diffusion MRI
data, estimation of DTI indices and normalisation of DTI index maps, which fully integrates
into the batch system of SPM8. These
tools are made for users familiar with the underlying statistical, mathematical
and image processing concepts. The ACID toolbox provides the option to write
the estimated diffusion tensor in the format of the Freiburg
DTI tools.
The ACID Toolbox contains the following options:
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/.
This toolbox comes with
absolutely NO WARRANTY! It is especially not intended for any clinical or
diagnostic use.
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 four
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
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;
doi:
10.1002/mrm.22501.
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, (in press); doi:
10.1002/mrm.24467.
COVIPER
combination of Diffusion Tensor
Mohammadi S, Nagy Z, Hutton C, Josephs O,
Weiskopf N. Correction of vibration artifacts in DTI using phase–encoding
reversal (COVIPER). Magn Res Med 2012; 68: 882–889; doi:
10.1002/mrm.23308.
LPF correction
of Diffusion Tensor
Mohammadi S, Nagy Z, Moller
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; doi: 10.1016/j.neuroimage.2011.12.009.
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(1999) Nonlinear spatial normalization using basis
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254-266.
Glauche V, Mohammadi S,
Deppe M (2010) SPM normalization toolbox for
diffusion weighted images.
Proc Intl Soc Mag Reson Med 18: Abstract
1648.
(2012) The Influence of
Spatial Registration on Detection of Cerebral Asymmetries Using Voxel-Based
Statistics of Fractional Anisotropy Images and TBSS. PLoS ONE 7(6):
e36851. doi:10.1371/journal.pone.0036851
Mohammadi S, Glauche V,
Deppe M (2009b) SPM normalization toolbox
for voxel-based statistics
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the 15th Human Brain Mapping
meeting, June 18-23, 2009, San
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