parrec2nii - Online in the Cloud

PROGRAM:

NAME

parrec2nii - convert PARREC image to NIfTI

SYNOPSIS

parrec2nii [OPTIONS] <PAR files>

DESCRIPTION

PAR/REC to NIfTI converter

OPTIONS

--version
show program's version number and exit

-h, --help
show this help message and exit

-v, --verbose
Make some noise.

-o OUTDIR, --output-dir=OUTDIR
Destination directory for NIfTI files. Default: current directory.

-c, --compressed
Whether to write compressed NIfTI files or not.

-p, --permit-truncated
Permit conversion of truncated recordings. Support for this is experimental, and
results *must* be checked afterward for validity.

-b, --bvs
Output bvals/bvecs files in addition to NIFTI image.

-d, --dwell-time
Calculate the scan dwell time. If supplied, the magnetic field strength should also
be supplied using --field-strength (default 3). The field strength must be supplied
because it is not encoded in the PAR/REC format.

--field-strength=FIELD_STRENGTH
The magnetic field strength of the recording, only needed for --dwell-time. The
field strength must be supplied because it is not encoded in the PAR/REC format.

--origin=ORIGIN
Reference point of the q-form transformation of the NIfTI image. If 'scanner' the
(0,0,0) coordinates will refer to the scanner's iso center. If 'fov', this
coordinate will be the center of the recorded volume (field of view). Default:
'scanner'.

--minmax=MINMAX
Mininum and maximum settings to be stored in the NIfTI header. If any of them is
set to 'parse', the scaled data is scanned for the actual minimum and maximum. To
bypass this potentially slow and memory intensive step (the data has to be scaled
and fully loaded into memory), fixed values can be provided as spaceseparated pair,
e.g. '5.4 120.4'. It is possible to set a fixed minimum as scan for the actual
maximum (and vice versa). Default: 'parse parse'.

--store-header
If set, all information from the PAR header is stored in an extension ofthe NIfTI
file header. Default: off

--scaling=SCALING
Choose data scaling setting. The PAR header defines two different data scaling
settings: 'dv' (values displayed on console) and 'fp' (floating point values).
Either one can be chosen, or scaling can be disabled completely ('off'). Note that
neither method will actually scale the data, but just store the corresponding
settings in the NIfTI header, unless non-uniform scaling is used, in which case the
data is stored in the file in scaled form. Default: 'dv'

--keep-trace
Do not discard the diagnostic Philips DTI trace volume, if it exists in the data.

--overwrite
Overwrite file if it exists. Default: False

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