fluid_fmri.py --
Main interface for functional analysis.
Uses code from workflows and experiment packages.
fluid_resting.py --
Interface for resting state preprocessing and registration.
Uses code from workflows package.
fluid_flash.py --
Analysis of multispectral FLASH images.
fluid_tbss.py --
Enhanced TBSS (tract-based segmentation statistics) workflow for DTI/R1 analysis
fluid_morph.py --
Freesurfer cortical-reconstruction-based morphometric analysis.
fluid_vbm.py --
Direct Nipype implementation of FSL VBM protocol.
fluid_dti.py --
VBM Analysis of DTI-based images.
Package with workflow modules. Should be entirely independent of anything Gfluid relevant.
preproc.py --
Preprocessing.
fsl_model.py --
First-level FSL modelfitting .
registration.py --
Application of normalization parameters and sampling to surface manifolds.
fixed_fx.py --
Second-level (within-subject) fixed-effect analysis.
resting_preproc.py --
Preprocessing for resting-state scans.
Will be deprecated soon when preproc.py is made more flexible.
interfaces.py --
A few custom interfaces for scripts that only exist at MIT.
utility.py --
Some utility classes/functions that are useful in workflows.
Package with modules containing paradigm information.
iq.py --
fMRI paradigm with fluid reasoning tasks.
nback.py --
Dual (auditory letter-matching/spatial) N-Back task.
mot_block.py --
Blocked multiple object tracking.
mot_jitter.py --
Event-related multiple object tracking.
unpack_dicoms.py --
NiPype script to convert DICOM files to nifti/mgh format and perform
structural preprocessing.
generate_parfiles.py --
Script to read Psychtoolbox experiment files and create FSL parfiles.
prepapre_fieldmaps.py --
Siemems/Fluid specific B0 fieldmap preprocessing.
fluid_utility.py --
Assorted functions used in our Nipype scripts.
The code contained in this repository is subject to change at any time.