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scanner2voxel

Section: User Commands (1)
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NAME

scanner2voxel - Converts scanner-order data to voxel-order data.

SYNOPSIS

scanner2voxel -voxels <number of voxels> -components <measurements per voxel> [options]

DESCRIPTION

Converts scanner order data files into the voxel order required by the Camino toolkit. Scanner-order data-files store the whole volume of the first measurement followed by the whole volume of the second measurement followed by the whole volume of subsequent measurements. Analyze format diffusion MRI data files are commonly in scanner order. Voxel-order data files store all of the measurements for the first voxel followed by all the measurements for the second voxel followed by all measurements for subsequent voxels.

By default, the input and output data type is big-endian float.

This program deals with raw data only. If endian conversion is required, use shredder. If the data has a header, use image2voxel - which will take care of input endian / type conversion as needed.

EXAMPLES

Convert scanner order data file ScannerOrder.img, for which the measurement volume has size 128x128x60 and the acquisition scheme acquires 6 measurements with b=0 and 54 diffusion-weighted measurements, to voxel order:

scanner2voxel -voxels 983040 -components 60 < ScannerOrder.img > VoxelOrder.Bfloat

Equivalently:

scanner2voxel -voxels 983040 -components 60 -inputfile ScannerOrder.img > VoxelOrder.Bfloat

Fit the diffusion tensor to the scanner-order data in ScannerOrder.img assuming the acquisition scheme is specified in A.scheme:

scanner2voxel -voxels 983040 -components 60 < ScannerOrder.img | dtfit - A.scheme -nonlinear > DiffTensorA.Bdouble

OPTIONS

-voxels <number of voxels>: The number of voxels in the input data.
-components <number of measurements>: The number of measurements per voxel.
-inputfile <input filename>: The name of the input file.
-inputdatatype <data type of input>: Specifies the data type of the input file. The data type can be any of the following strings: "char", "short", "int", "long", "float" or "double".
-outputdatatype <data type of output>: Specifies the data type of the output data. The data type can be any of the following strings: "char", "short", "int", "long", "float" or "double".

AUTHORS

Daniel Alexander <camino@cs.ucl.ac.uk>

BUGS

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Time: 02:07:11 GMT, December 04, 2017

Scanner2voxel