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NIFTI update: nifti_tool

Author: rick reynolds (---.nimh.nih.gov)
Date: 04-15-05 13:02

Hi All,

For those interested in the NIFTI format, there have been
some good updates to the nifti_tool program this month.
These updates are currently available (in afni_src.tgz).

I will try to keep this relatively short. Please see
"nifti_tool -help" or "nifti_tool -hist" for various details.
The help gives examples under the descriptions for individual
options.

Please feel free to post any comments or questions.
The details follow...

- rick

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As a reminder, the previous version of nifti_tool was able to
perform these display, modification or comparison tasks with
NIFTI datasets:

A. display any or all fields from the dataset header
B. display any or all fields from the nifti_image struct
C. display the extensions in the dataset
D. modify any fields of the header or nifti_image struct
E. add/rm extensions
F. compare any/all field pairs between two datasets

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NEW functionality (as of April 15th, say):

1. copy a list of dataset volumes to a new dataset (the AFNI way)

For example, one can copy: my_dset.nii'[7,3,3,0,4..58(2),81]'
This is done via the -copy_brick_list (or -cbl) option.

2. copy a dataset by collapsing arbitrary dimensions

This will copy a dataset, but where the user can specify some
dimensions to reduce down to single indices. Some examples:
a. copy sub-brick 3 b. copy the time series for z-slice 17
c. copy y-slice 4 at time 106

This is done via the -copy_collapsed_image (or -cci) option.

3. display (in ASCII) the time series for a voxel (given ijk)

This is done via the -disp_ts option.

4. display (in ASCII) the values of any collapsed image

This is done via the -disp_ci option. Here one is displaying
a collapsed image, instead of copying it to a new dataset (as
is done with the -cci option).
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