1. Introduction
* Alternation and distribution
This software is implemented in relation to the GNU General
Public License. It is free to use, and free to modify and change
the program contents with self responsibility. Only the obligation of use is that
indicate the name of this software (multi_color) and the URL address (http://www.cns.atr.jp/multi_color/)
on your publication which is made by using this software.
* Discharge from responsibility
We have tried to take all possible measures to ensure that building the
software. However, we do not assure the safety of use and will not be
responsible for any direct or indirect damages or losses of your work
by using this software. We make no warranties/recompenses of any kind
for it. You are solely responsible for using this program. Also, we
have no obligation to solve any problems and to make modification of
this software when it has unsatisfactory matters in the program.
* System requirements
This software requires MATLAB larger than R13(version 6.5).
<< We
recommend larger than MATLAB R14 Service Pack 2(Version 7.0.4).
>>
The software is developed and checked its operation by the MATLAB
R2006a(V7.2.0) through the CentOS Linux (linux
kernel:2.6.9-34.0.2.ELsmp).
* Program Summary
This software is a MATLAB program to overlay a number of resulting
imaging data maps of the contrast on a single brain structure image. It
is also possible to express the overlapped contrast maps into the Three
Dimensions.
Need to prepare,
- Contrast data file
- Structural image file
- ROI(Region Of Interest) image file (OPTION)
[Note]
The contrast data file, the structural image file and the ROI image
file can be formatted as the ANALYZE
7.5, NIFTI1,
MATLAB(*1), and Text file (*2). The resolution of the
structural image file should be higher (smaller VOX size) than the
contrast data file. Especially for the structural image file, the
resolution with integral multiplication is recommended to the Contrast
data file.
(*1)
The reference_file variable and the voxmat variable are preserved in
the data file of MATLAB form (.mat). The file name of the ANALYZE
7.5
form or the NIFTI1
model is set to the reference_file variable. Header
information such as Voxel size and Dim size is read from the reference
file specified by the reference_file variable. On the other hand, the
voxmat variable sets X, Y, and Z coordinates in the Voxel coordinate
system in the third row from the first row in arrange two dimensions of
four N line rows and the data value is set to the fourth row. In the
data file of the MATLAB form, it treats as NaN(Not-a-Number) excluding
coordinates specified by the voxmat variable.
>> data =
load('voxmatrix_new.mat')
data =
reference_file: 'con_0000.img'
voxmat: [129x4 double]
>> data.voxmat(1:10,:)
ans =
33.0000 38.0000
2.0000 2.5600
34.0000 37.0000
12.0000 2.5800
34.0000 38.0000
12.0000 2.6300
35.0000 32.0000
13.0000 2.5900
38.0000 35.0000
12.0000 2.6100
39.0000 31.0000
12.0000 2.3200
42.0000 31.0000
10.0000 2.3000
45.0000 27.0000
8.0000 2.0000
45.0000 31.0000
9.0000 2.0012
45.0000 31.0000
8.0000 2.1333
(*2)
In the data file of text form (.txt), the file name of the ANALYZE
7.5
form or the NIFTI1
model that refers to header information is set to
the reference_file line. Moreover, the number of data is specified for
the
voxel_num line, and data is set to the vox_val line. In the data file
of the text form, it treats as NaN(Not-a-Number) excluding coordinates
specified by the vox_val line.
>> cat voxmatrix_new.txt
# reference_file = name of a reference data file.
# voxel_num = number of vox_val data.
# vox_val(X,Y,Z) = Value
reference_file = con_0000.img
voxel_num = 129
vox_val(33,38,2) = 2.560000
vox_val(34,37,12) = 2.580000
vox_val(34,38,12) = 2.630000
vox_val(35,32,13) = 2.590000
vox_val(38,35,12) = 2.610000
vox_val(39,31,12) = 2.320000
vox_val(42,31,10) = 2.300000
vox_val(45,27,8) = 1.999998
vox_val(45,31,9) = 2.001221
vox_val(45,31,8) = 2.133333
vox_val(45,32,7) = 2.002345
vox_val(46,32,8) = 2.000000
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