t2_fit

Fit T2 relaxation curves from multiple echo images.

t2_fit [options] <input1> ... <inputn> <output>

DESCRIPTION

t2_fit fits T2 relaxation curves from a series of multiple echo time MINC volumes acquired at different echo times. The tool estimates the T2 relaxation time at each voxel by fitting an exponential decay model to the multi-echo data, producing a T2 map as output.

OPTIONS

--verbose

Print progress information during processing.

--clobber

Overwrite existing output files.

--threshold f

Set the background intensity threshold. Voxels with intensity below this value are excluded from fitting.

--t2_threshold f

Set the maximum T2 threshold. Fitted T2 values above this limit are clamped or excluded.

--mask minc_file

Restrict the T2 fitting to voxels within the specified binary mask.

EXAMPLES

Fit T2 from four echo images:

t2_fit echo1.mnc echo2.mnc echo3.mnc echo4.mnc t2_map.mnc

Fit T2 with a brain mask and background threshold:

t2_fit --mask brainmask.mnc --threshold 100 echo1.mnc echo2.mnc echo3.mnc t2_map.mnc

AUTHOR

Vladimir S. Fonov - McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.

COPYRIGHTS

Copyright © 2011 by Vladimir S. Fonov

SEE ALSO

mincmath, minccalc