happy2std
Description:
This is a utility for registering happy output maps to standard coordinates. NB: this will only work if you have a working FSL installation.
Inputs:
inputfileroot - the root name of the input NIFTI files (up and including the ‘desc’ but not the underscore).
outputdir - The location for the output files
featdirectory - Either a feat-like directory (x.feat or x.ica) or an fmriprep derivativesanat directory where the information needed for registration to standard space can be found
Outputs:
The happy maps, transformed to MNI152 space
Usage:
Register happy output maps to standard space.
usage: happy2std inputfileroot outputdir featdirectory
Positional Arguments
- inputfileroot
the root name of the input NIFTI files (up and including the ‘desc’ but not the underscore).
- outputdir
The location for the output files
- featdirectory
Either a feat-like directory (x.feat or x.ica) or an fmriprep derivativesanat 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).
- --fake
Output, but do not execute, alignment commands.
Default: False