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Documentation.StdSpace History
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We recommend the [[http://www.nitrc.org/projects/iit2 | Enhanced ICBM template]] according to the recent evaluation study '''"Investigating the role of ICBM-space human brain diffusion tensor templates in inter-subject spatial normalization"''' ([[http://cds.ismrm.org/protected/11MProceedings/files/344.pdf | pdf]]). The template is available for download [[http://www.nitrc.org/projects/iit2 | here]]. The two files to use are
to:
We recommend the [[http://www.nitrc.org/projects/iit2 | Enhanced ICBM template]] according to the recent evaluation study '''"Investigating the role of ICBM-space human brain diffusion tensor templates in inter-subject spatial normalization"''' ([[http://cds.ismrm.org/protected/11MProceedings/files/344.pdf | pdf]]). The template is available for download [[http://www.nitrc.org/projects/iit2 | here]]. The two files to use are [[https://www.nitrc.org/frs/download.php/11301/IITmean_tensor_256.nii.gz | IITmean_tensor_256.nii.gz]], which is the tensor template, and [[https://www.nitrc.org/frs/download.php/11302/IITmean_tensor_mask_256.nii.gz | IITmean_tensor_mask_256.nii.gz]], which is the corresponding binary mask.
This sets the volume's dimensions (size) to powers of 2. We set the voxel dimensions (vsize) to [182/128 218/128 182/128] mm, so that we maintain the total physical size of 182x218x182 mm^3.
!!Mapping the Population Template to a Template Defining a Standard Space
Let the population template be mean.nii.gz and the template defining a standard space be ''template.nii.gz''. The following set of commands will register the population template to the standard-space template with a series of registrations, beginning with rigid, then affine, then finally diffeomorphic.
Changed lines 17-19 from:
IITmean_tensor_256.nii.gz [[https://www.nitrc.org/frs/download.php/11301/IITmean_tensor_256.nii.gz | here]]
to:
dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001
dti_affine_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 1
dti_diffeomorphic_reg template.nii.gz mean_aff.nii.gz template_mask.nii.gz 1 6 0.002 Changed lines 22-23 from:
to:
Recall that ''mean_aff.nii.gz'' is the result from the affine registration and ''template_mask.nii.gz'' is created with the following commands.
Changed lines 25-26 from:
IITmean_tensor_mask_256.nii.gz
to:
TVtool -in template.nii.gz -tr
BinaryThresholdImageFilter template_tr.nii.gz template_mask.nii.gz 0.01 100 1 0 Changed lines 29-33 from:
This sets the volume's dimensions (size) to powers of 2. We set the voxel dimensions (vsize) to [182/128 218/128 182/128] mm, so that we maintain the total physical size of 182x218x182 mm^3.
!!Mapping the Population Template to a Template Defining a Standard Space
Let the population template be mean.nii.gz and the template defining a standard space be ''template.nii.gz''. The following set of commands will register the population template to the standard-space template with a series of registrations, beginning with rigid, then affine, then finally diffeomorphic.
to:
Next, we compute the combined deformation field that defines the mapping from the population template space to the standard-space template.
Changed lines 32-34 from:
dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001
dti_affine_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 1
dti_diffeomorphic_reg template.nii.gz mean_aff.nii.gz template_mask.nii.gz 1 6 0.002
to:
dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz Changed lines 35-36 from:
Recall that ''mean_aff.nii.gz'' is the result from the affine registration and ''template_mask.nii.gz'' is created with the following commands.
to:
Recall that ''mean.aff'' is the result from the affine registration, ''mean_aff_diffeo.df.nii.gz'' from the diffeomorphic registration, and ''mean_combined.df.nii.gz'' is our desired mapping.
!!Mapping Subject Native Space to the Standard Space
This step should be repeated for every subject in the studies. It involves the composition of the mapping from the subject native space to the population-template space and the mapping from the population template space to the standard space. Assume the original subject be ''subj.nii.gz'', i.e., before any registration. Then the composition is accomplished with the following command:
Changed lines 41-42 from:
TVtool -in template.nii.gz -tr
BinaryThresholdImageFilter template_tr.nii.gz template_mask.nii.gz 0.01 100 1 0
to:
dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz Deleted lines 42-56:
Next, we compute the combined deformation field that defines the mapping from the population template space to the standard-space template.
->[@
dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz
@]
Recall that ''mean.aff'' is the result from the affine registration, ''mean_aff_diffeo.df.nii.gz'' from the diffeomorphic registration, and ''mean_combined.df.nii.gz'' is our desired mapping.
!!Mapping Subject Native Space to the Standard Space
This step should be repeated for every subject in the studies. It involves the composition of the mapping from the subject native space to the population-template space and the mapping from the population template space to the standard space. Assume the original subject be ''subj.nii.gz'', i.e., before any registration. Then the composition is accomplished with the following command:
->[@
dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz
@]
Changed lines 9-14 from:
We recommend the [[http://www.nitrc.org/projects/iit2 | Enhanced ICBM template]] according to the recent evaluation study '''"Investigating the role of ICBM-space human brain diffusion tensor templates in inter-subject spatial normalization"''' ([[http://cds.ismrm.org/protected/11MProceedings/files/344.pdf | pdf]]). The template is available for download [[http://www.nitrc.org/projects/iit2 | here]].
%center%Attach:IIT_dti_template_files.png
The following steps illustrate how to make the IIT2 template compatible with DTI-TK, using IIT2mean as the example.
to:
We recommend the [[http://www.nitrc.org/projects/iit2 | Enhanced ICBM template]] according to the recent evaluation study '''"Investigating the role of ICBM-space human brain diffusion tensor templates in inter-subject spatial normalization"''' ([[http://cds.ismrm.org/protected/11MProceedings/files/344.pdf | pdf]]). The template is available for download [[http://www.nitrc.org/projects/iit2 | here]]. The two files to use are
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TVFromEigensystem -basename IIT2mean -type FSL
to:
IITmean_tensor_256.nii.gz [[https://www.nitrc.org/frs/download.php/11301/IITmean_tensor_256.nii.gz | here]] Changed lines 15-16 from:
This outputs the IIT2mean.nii.gz, which is the template in DTI-TK format and in LPI orientation (Note that the original IIT2 template is in RPI orientation).
to:
Changed lines 18-19 from:
TVAdjustVoxelspace -in IIT2mean.nii.gz -origin 0 0 0
TVtool -in IIT2mean.nii.gz -out IIT2mean.nii.gz -scale 1000
to:
IITmean_tensor_mask_256.nii.gz Deleted lines 20-25:
This sets the origin to [0 0 0] and the diffusivity unit to be compatible with DTI-TK.
->[@
TVResample -in IIT2mean.nii.gz -align center -size 128 128 128 -vsize 1.421875 1.703125 1.421875
@]
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%center%Attach:IIT_template_files.png
to:
%center%Attach:IIT_dti_template_files.png
Added lines 11-12:
%center%Attach:IIT_template_files.png
Changed lines 9-10 from:
We recommend the [[http://www.nitrc.org/projects/iit2 | Enhanced ICBM template]] according to the recent evaluation study '''"Investigating the role of ICBM-space human brain diffusion tensor templates in inter-subject spatial normalization"''' ([[http://submissions.miracd.com/ismrm2011/proceedings/files/344.pdf | pdf]]). The template is available for download [[http://www.nitrc.org/projects/iit2 | here]].
to:
We recommend the [[http://www.nitrc.org/projects/iit2 | Enhanced ICBM template]] according to the recent evaluation study '''"Investigating the role of ICBM-space human brain diffusion tensor templates in inter-subject spatial normalization"''' ([[http://cds.ismrm.org/protected/11MProceedings/files/344.pdf | pdf]]). The template is available for download [[http://www.nitrc.org/projects/iit2 | here]].
Changed line 62 from:
Recall that ''subj_combined.df.nii.gz'' is the mapping from the subject native space to the population-template space. to:
Recall that ''subj_combined.df.nii.gz'' is the mapping from the subject native space to the population-template space.
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TVTrace -in template.nii.gz
to:
TVtool -in template.nii.gz -tr
Changed line 14 from:
TVFromEigensystem -in IIT2mean -type FSL to:
TVFromEigensystem -basename IIT2mean -type FSL
Changed lines 30-31 from:
This set the volume's dimensions (size) to powers of 2. We set the voxel dimensions (vsize) to [182/128 218/128 182/128] mm, so that we maintain the total physical size of 182x218x182 mm^3.
to:
This sets the volume's dimensions (size) to powers of 2. We set the voxel dimensions (vsize) to [182/128 218/128 182/128] mm, so that we maintain the total physical size of 182x218x182 mm^3.
Changed lines 17-18 from:
->This outputs the IIT2mean.nii.gz, which is the template in DTI-TK format and in LPI orientation (Note that the original IIT2 template is in RPI orientation).
to:
This outputs the IIT2mean.nii.gz, which is the template in DTI-TK format and in LPI orientation (Note that the original IIT2 template is in RPI orientation).
Changed lines 24-25 from:
->This sets the origin to [0 0 0] and the diffusivity unit to be compatible with DTI-TK.
to:
This sets the origin to [0 0 0] and the diffusivity unit to be compatible with DTI-TK.
Changed lines 30-31 from:
->This set the volume's dimensions (size) to powers of 2. We set the voxel dimensions (vsize) to [182/128 218/128 182/128] mm, so that we maintain the total physical size of 182x218x182 mm^3.
to:
This set the volume's dimensions (size) to powers of 2. We set the voxel dimensions (vsize) to [182/128 218/128 182/128] mm, so that we maintain the total physical size of 182x218x182 mm^3.
Changed lines 11-12 from:
The following two commands make the template compatible with DTI-TK:
to:
The following steps illustrate how to make the IIT2 template compatible with DTI-TK, using IIT2mean as the example.
Changed line 14 from:
TVAdjustVoxelspace -in template_original.nii.gz -out template_dtitk.nii.gz -origin 0 0 0
to:
TVFromEigensystem -in IIT2mean -type FSL Changed lines 17-18 from:
This sets the origin to [0 0 0].
to:
->This outputs the IIT2mean.nii.gz, which is the template in DTI-TK format and in LPI orientation (Note that the original IIT2 template is in RPI orientation).
Changed lines 20-21 from:
TVResample -in template_dtitk.nii.gz -align center -size 128 128 128 -vsize 1.421875 1.703125 1.421875
to:
TVAdjustVoxelspace -in IIT2mean.nii.gz -origin 0 0 0
TVtool -in IIT2mean.nii.gz -out IIT2mean.nii.gz -scale 1000 Changed lines 24-28 from:
This makes the volume have dimensions (sizes) of powers of 2 while maintaining the same total physical sizes of 182x218x182 mm^3.
!!Mapping the Population Template to a Template Defining a Standard Space
Let the population template be mean.nii.gz and the template defining a standard space be ''template.nii.gz''. The following set of commands will register the population template to the standard-space template with a series of registrations, beginning with rigid, then affine, then finally diffeomorphic.
to:
->This sets the origin to [0 0 0] and the diffusivity unit to be compatible with DTI-TK.
Changed lines 27-29 from:
dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001
dti_affine_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 1
dti_diffeomorphic_reg template.nii.gz mean_aff.nii.gz template_mask.nii.gz 1 6 0.002
to:
TVResample -in IIT2mean.nii.gz -align center -size 128 128 128 -vsize 1.421875 1.703125 1.421875 Changed lines 30-31 from:
Recall that ''mean_aff.nii.gz'' is the result from the affine registration and ''template_mask.nii.gz'' is created with the following commands.
to:
->This set the volume's dimensions (size) to powers of 2. We set the voxel dimensions (vsize) to [182/128 218/128 182/128] mm, so that we maintain the total physical size of 182x218x182 mm^3.
!!Mapping the Population Template to a Template Defining a Standard Space
Let the population template be mean.nii.gz and the template defining a standard space be ''template.nii.gz''. The following set of commands will register the population template to the standard-space template with a series of registrations, beginning with rigid, then affine, then finally diffeomorphic.
Changed lines 36-37 from:
TVTrace -in template.nii.gz
BinaryThresholdImageFilter template_trtemplate_mask.nii.gz 0.01 100 1 0
to:
dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001
dti_affine_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 1
dti_diffeomorphic_reg template.nii.gz mean_aff.nii.gz template_mask.nii.gz 1 6 0.002 Changed lines 41-42 from:
Next, we compute the combined deformation field that defines the mapping from the population template space to the standard-space template.
to:
Recall that ''mean_aff.nii.gz'' is the result from the affine registration and ''template_mask.nii.gz'' is created with the following commands.
Changed lines 44-45 from:
dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz
to:
TVTrace -in template.nii.gz
BinaryThresholdImageFilter template_tr.nii.gz template_mask.nii.gz 0.01 100 1 0 Added lines 48-53:
Next, we compute the combined deformation field that defines the mapping from the population template space to the standard-space template.
->[@
dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz
@]
Changed lines 11-13 from:
!!Mapping the Population Template to a Template Defining a Standard Space
Let the population template be mean.nii.gz and the template defining a standard space be ''template.nii.gz''. The following set of commands will register the population template to the standard-space template with a series of registrations, beginning with rigid, then affine, then finally diffeomorphic.
to:
The following two commands make the template compatible with DTI-TK:
Changed lines 14-16 from:
dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001
dti_affine_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 1
dti_diffeomorphic_reg template.nii.gz mean_aff.nii.gz template_mask.nii.gz 1 6 0.002
to:
TVAdjustVoxelspace -in template_original.nii.gz -out template_dtitk.nii.gz -origin 0 0 0 Changed lines 17-18 from:
Recall that ''mean_aff.nii.gz'' is the result from the affine registration and ''template_mask.nii.gz'' is created with the following commands.
to:
This sets the origin to [0 0 0].
Changed lines 20-21 from:
TVTrace -in template.nii.gz
BinaryThresholdImageFilter template_tr.nii.gz template_mask.nii.gz 0.01 100 1 0
to:
TVResample -in template_dtitk.nii.gz -align center -size 128 128 128 -vsize 1.421875 1.703125 1.421875 Changed lines 23-24 from:
Next, we compute the combined deformation field that defines the mapping from the population template space to the standard-space template.
to:
This makes the volume have dimensions (sizes) of powers of 2 while maintaining the same total physical sizes of 182x218x182 mm^3.
!!Mapping the Population Template to a Template Defining a Standard Space
Let the population template be mean.nii.gz and the template defining a standard space be ''template.nii.gz''. The following set of commands will register the population template to the standard-space template with a series of registrations, beginning with rigid, then affine, then finally diffeomorphic.
Changed lines 29-31 from:
dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz
to:
dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001
dti_affine_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 1
dti_diffeomorphic_reg template.nii.gz mean_aff.nii.gz template_mask.nii.gz 1 6 0.002 Changed lines 34-38 from:
Recall that ''mean.aff'' is the result from the affine registration, ''mean_aff_diffeo.df.nii.gz'' from the diffeomorphic registration, and ''mean_combined.df.nii.gz'' is our desired mapping.
!!Mapping Subject Native Space to the Standard Space
This step should be repeated for every subject in the studies. It involves the composition of the mapping from the subject native space to the population-template space and the mapping from the population template space to the standard space. Assume the original subject be ''subj.nii.gz'', i.e., before any registration. Then the composition is accomplished with the following command:
to:
Recall that ''mean_aff.nii.gz'' is the result from the affine registration and ''template_mask.nii.gz'' is created with the following commands.
Changed lines 37-38 from:
dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz
to:
TVTrace -in template.nii.gz
BinaryThresholdImageFilter template_tr.nii.gz template_mask.nii.gz 0.01 100 1 0 Added lines 40-54:
Next, we compute the combined deformation field that defines the mapping from the population template space to the standard-space template.
->[@
dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz
@]
Recall that ''mean.aff'' is the result from the affine registration, ''mean_aff_diffeo.df.nii.gz'' from the diffeomorphic registration, and ''mean_combined.df.nii.gz'' is our desired mapping.
!!Mapping Subject Native Space to the Standard Space
This step should be repeated for every subject in the studies. It involves the composition of the mapping from the subject native space to the population-template space and the mapping from the population template space to the standard space. Assume the original subject be ''subj.nii.gz'', i.e., before any registration. Then the composition is accomplished with the following command:
->[@
dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz
@]
Changed lines 9-10 from:
We recommend the [[http://www.nitrc.org/projects/iit2 | Enhanced ICBM template]] according to the recent evaluation study entitled "Investigating the role of ICBM-space human brain diffusion tensor templates in inter-subject spatial normalization" ([[http://submissions.miracd.com/ismrm2011/proceedings/files/344.pdf | pdf]].
to:
We recommend the [[http://www.nitrc.org/projects/iit2 | Enhanced ICBM template]] according to the recent evaluation study '''"Investigating the role of ICBM-space human brain diffusion tensor templates in inter-subject spatial normalization"''' ([[http://submissions.miracd.com/ismrm2011/proceedings/files/344.pdf | pdf]]). The template is available for download [[http://www.nitrc.org/projects/iit2 | here]].
Added lines 7-10:
!!Recommended standard-space DTI template
We recommend the [[http://www.nitrc.org/projects/iit2 | Enhanced ICBM template]] according to the recent evaluation study entitled "Investigating the role of ICBM-space human brain diffusion tensor templates in inter-subject spatial normalization" ([[http://submissions.miracd.com/ismrm2011/proceedings/files/344.pdf | pdf]].
Changed lines 10-11 from:
->[@ dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 to:
->[@
dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 Changed lines 18-19 from:
->[@ TVTrace -in template.nii.gz to:
->[@
TVTrace -in template.nii.gz Changed lines 25-26 from:
->[@ dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz to:
->[@
dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz Changed lines 34-35 from:
->[@ dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz to:
->[@
dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz Changed line 37 from:
Recall that ''subj_combined.df.nii.gz'' is the mapping from the subject native space to the population-template space. to:
Recall that ''subj_combined.df.nii.gz'' is the mapping from the subject native space to the population-template space.
Changed lines 10-11 from:
->[@
dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 to:
->[@ dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 Changed lines 23-24 from:
->[@
dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz to:
->[@ dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz Changed lines 31-32 from:
->[@
dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz to:
->[@ dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz
Changed lines 5-6 from:
Image mapping to standard space is often required in reporting results from voxel-based analysis. This tutorial]] outlines the steps necessary to accomplish this task. I assume you have gone through [[Documentation.Registration|the image registration]] and [[Documentation.OptionspostReg|the image mapping]] tutorials and are familiar with the concepts and commands introduced in those tutorials.
to:
Image mapping to standard space is often required in reporting results from voxel-based analysis. This tutorial outlines the steps necessary to accomplish this task. I assume you have gone through [[Documentation.Registration|the image registration]] and [[Documentation.OptionspostReg|the image mapping]] tutorials and are familiar with the concepts and commands introduced in those tutorials.
Changed lines 10-11 from:
->[@ dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 to:
->[@
dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 Changed lines 24-25 from:
->[@ dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz to:
->[@
dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz Changed lines 33-34 from:
->[@ dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz to:
->[@
dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz
Added lines 4-6:
!!Overview
Image mapping to standard space is often required in reporting results from voxel-based analysis. This tutorial]] outlines the steps necessary to accomplish this task. I assume you have gone through [[Documentation.Registration|the image registration]] and [[Documentation.OptionspostReg|the image mapping]] tutorials and are familiar with the concepts and commands introduced in those tutorials.
Added lines 1-30:
(:noleft:) (:notitle:)(:title Options:)
! Image mapping to standard space
!!Mapping the Population Template to a Template Defining a Standard Space
Let the population template be mean.nii.gz and the template defining a standard space be ''template.nii.gz''. The following set of commands will register the population template to the standard-space template with a series of registrations, beginning with rigid, then affine, then finally diffeomorphic.
->[@ dti_rigid_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001
dti_affine_reg template.nii.gz mean.nii.gz EDS 4 4 4 0.001 1
dti_diffeomorphic_reg template.nii.gz mean_aff.nii.gz template_mask.nii.gz 1 6 0.002
@]
Recall that ''mean_aff.nii.gz'' is the result from the affine registration and ''template_mask.nii.gz'' is created with the following commands.
->[@ TVTrace -in template.nii.gz
BinaryThresholdImageFilter template_tr.nii.gz template_mask.nii.gz 0.01 100 1 0
@]
Next, we compute the combined deformation field that defines the mapping from the population template space to the standard-space template.
->[@ dfRightComposeAffine -aff mean.aff -df mean_aff_diffeo.df.nii.gz -out mean_combined.df.nii.gz
@]
Recall that ''mean.aff'' is the result from the affine registration, ''mean_aff_diffeo.df.nii.gz'' from the diffeomorphic registration, and ''mean_combined.df.nii.gz'' is our desired mapping.
!!Mapping Subject Native Space to the Standard Space
This step should be repeated for every subject in the studies. It involves the composition of the mapping from the subject native space to the population-template space and the mapping from the population template space to the standard space. Assume the original subject be ''subj.nii.gz'', i.e., before any registration. Then the composition is accomplished with the following command:
->[@ dfComposition -df2 subj_combined.df.nii.gz -df1 mean_combined.df.nii.gz -out subj_to_template.df.nii.gz
@]
Recall that ''subj_combined.df.nii.gz'' is the mapping from the subject native space to the population-template space.
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