rapidtide2std
Description:
This is a utility for registering rapidtide output maps to standard coordinates. It’s usually much faster to run rapidtide in native space then transform afterwards to MNI152 space. NB: this will only work if you have a working FSL installation.
Inputs:
Outputs:
New versions of the rapidtide output maps, registered to either MNI152 space or to the hires anatomic images for the subject. All maps are named with the specified root name with ‘_std’ appended.
Usage:
Register rapidtide output maps to standard space.
usage: rapidtide2std [-h] [--all] [--hires] [--linear] [--onefile FILE]
[--sequential] [--fake] [--debug]
inputfileroot outputdir featdirectory
Positional Arguments
- inputfileroot
the root name of the input NIFTI files (up to but not including the underscore).
- outputdir
The location for the output files
- featdirectory
Either a feat directory (x.feat) or an fmriprep derivatives anat directory where the information needed for registration to standard space can be found
Named Arguments
- --all
Also transform the corrout file (warning - file may be huge).
Default: False
- --hires
Transform to match the high resolution anatomic image rather than the standard.
Default: False
- --linear
Only do linear transformation, even if warpfile exists.
Default: False
- --onefile
Align a single file, specified by name without extension (ignore INPUTFILEROOT).
- --sequential
Execute commands sequentially - do not submit to the cluster.
Default: False
- --fake
Output, but do not execute, alignment commands.
Default: False
- --debug
Output additional debugging information.
Default: False