hdr
pipeline://cranium.loni.ucla.edu//usr/local/loniData/ccb/irma/E1314S2I.img
hdr
pipeline://cranium.loni.ucla.edu//usr/local/loniData/ccb/irma/ICBM_Template.img
matrix multiplication
reslice
air file
hdr
2
3
4
5
6
X/Y/Z Values For Model Number
X/Y/Z Values For Model Number
Interpolation Model 2-6
Interpolation Model 2-6
0
1
7
10
11
12
13
registration
nonlinear
http://bishopw.loni.ucla.edu/AIR5/align_warp.html
hdr
hdr
1
2
3
4
5
6
7
8
9
10
11
12
21
22
23
24
25
26
27
28
29
30
31
32
1
1
2
3
4
5
6
7
8
9
10
11
12
21
22
23
24
25
26
27
28
29
30
31
32
12
1.5
1.5
1.5
1.5
1.5
1.5
hdr
hdr
80
200
0
0
1
2
3
hdr
0
1
2
3
4
5
X/Y/Z Dimension
X/Y/Z Dimension
1
Interpolation Model Number
Interpolation Model Number
1
1
1
rotate
mirror image
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
xz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
mnc
http://wiki.bic.mni.mcgill.ca/index.php/MinctraccManPage
-lsq3
-lsq6
-lsq7
-lsq9
-lsq10
-lsq12
-lsq
-lsq3
1
0
resample
transform
spatial dimensions
http://wiki.bic.mni.mcgill.ca/index.php/MincresampleManPage
Use Input Sampling
TFM Input Sampling
Like
Transformation (use_input_sampling)
Transformation (like)
Transformation (tfm_input_sampling)
pipeline://cranium.loni.ucla.edu//ifs/tmp/{$username}/irma/LONI_test/output/{CASE}/top_ranked
pipeline://cranium.loni.ucla.edu//ifs/tmp/{$username}/irma/LONI_test/output/{CASE}/metric
-lsq3
-lsq6
-lsq7
-lsq9
-lsq10
-lsq12
registration
linear
http://bishopw.loni.ucla.edu/AIR5/alignlinear.html
hdr
hdr
6
7
9
12
15
23
24
25
26
28
6
10
10
hdr
hdr
1
2
3
1
1
3
6
7
9
11
11
11
15
15
15
17
17
17
19
19
19
25
25
25
hdr
hdr
Apply XFM
char
short
int
float
double
mutualinfo
corratio
normcorr
normmi
leastsq
mutualinfo
corratio
normcorr
normmi
leastsq
mutualinfo
quaternion
euler
trilinear
nearestneighbour
sinc
trilinear
6
7
9
12
6
Padding Size
Initial Matrix File
Apply XFM
hdr
hdr
rectangular
hanning
blackman
6
7
9
12
trilinear
nearestneighbour
sinc
mutualinfo
corratio
normcorr
normmi
leastsq
pipeline://cranium.loni.ucla.edu//usr/local/loniData/ccb/irma/ICBM_Template.mnc
pipeline://cranium.loni.ucla.edu//usr/local/loniData/ccb/irma/E1314S2I.mnc
conversion
analyze
NIFTI etc
http://www.fmrib.ox.ac.uk/fsl/avwutils/index.html
ANALYZE
ANALYZE_GZ
NIFTI
NIFTI_PAIR
NIFTI_PAIR_GZ
ANALYZE
minc
analyze
http://www.bic.mni.mcgill.ca/software/
hdr
rotate
mirror image
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
xz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
Woods, R.P., Grafton, S.T., Holmes, C.J., Cherry, S.R., and Mazziotta, J.C. (1998a). Automated image registration: I. General methods and intrasubject, intramodality validation. J Comput Assist Tomogr V22, 139-152.
PMID: 9448779
Woods, R.P., Grafton, S.T., Watson, J.D., Sicotte, N.L., and Mazziotta, J.C. (1998b). Automated image registration: II. Intersubject validation of linear and nonlinear models. J Comput Assist Tomogr 22, 153-165.
PMID: 9448780
rotate
mirror image
http://bishopw.loni.ucla.edu/AIR5/reorient.html
hdr
Woods, R.P., Grafton, S.T., Holmes, C.J., Cherry, S.R., and Mazziotta, J.C. (1998a). Automated image registration: I. General methods and intrasubject, intramodality validation. J Comput Assist Tomogr V22, 139-152.
PMID: 9448779
Woods, R.P., Grafton, S.T., Watson, J.D., Sicotte, N.L., and Mazziotta, J.C. (1998b). Automated image registration: II. Intersubject validation of linear and nonlinear models. J Comput Assist Tomogr 22, 153-165.
PMID: 9448780
rotate
mirror image
http://bishopw.loni.ucla.edu/AIR5/reorient.html
hdr
hdr
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
xz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
hdr
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
xz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
0
1
2
0
1-11
hdr
hdr
0
1
2
0
1-11
hdr
hdr
hdr
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
xz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
hdr
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
xz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
0
1
2
0
1-11
hdr
hdr
hdr
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
xz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
hdr
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
xz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
0
1
2
0
1-11
hdr
hdr
hdr
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
xz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
hdr
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
xz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
x
y
z
xy
yx
xz
zx
yz
zy
xx
yy
zz
FEMALES
ALZHEIMERS
ADULTS
NATIVE
E1314S2I