sct_compute_mtsat¶
Compute MTsat and T1map. Reference: Helms G, Dathe H, Kallenberg K, Dechent P. High-resolution maps of magnetization transfer with inherent correction for RF inhomogeneity and T1 relaxation obtained from 3D FLASH MRI. Magn Reson Med 2008;60(6):1396-1407.
usage: sct_compute_mtsat -mt <file> -pd <file> -t1 <file> [-h] [-trmt <float>]
[-trpd <float>] [-trt1 <float>] [-famt <float>]
[-fapd <float>] [-fat1 <float>] [-b1map <file>]
[-omtsat <str>] [-ot1map <str>] [-v <int>]
MANDATORY ARGUMENTS¶
- -mt
Image with MT_ON
- -pd
Image PD weighted (typically, the MT_OFF)
- -t1
Image T1-weighted
OPTIONAL ARGUMENTS¶
- -trmt
TR [in s] for the MT image (MT on). By default, will be fetch from the json sidecar (if it exists).
- -trpd
TR [in s] for proton density weighted image (MT off). By default, will be fetch from the json sidecar (if it exists).
- -trt1
TR [in s] for T1-weighted image. By default, will be fetch from the json sidecar (if it exists).
- -famt
Flip angle [in deg] for mt image. By default, will be fetch from the json sidecar (if it exists).
- -fapd
Flip angle [in deg] for pd image. By default, will be fetch from the json sidecar (if it exists).
- -fat1
Flip angle [in deg] for t1 image. By default, will be fetch from the json sidecar (if it exists).
- -b1map
B1 map
- -omtsat
Output file for MTsat
Default: “mtsat.nii.gz”
- -ot1map
Output file for T1map
Default: “t1map.nii.gz”
- -v
Possible choices: 0, 1, 2
Verbosity. 0: Display only errors/warnings, 1: Errors/warnings + info messages, 2: Debug mode
Default: 1