Available modules
SPM
- Realign
- Coregister
- Normalize
- Segment
- Smooth
- Level 1 - Model Specification
- Level 1 - Model Estimation
- Level 1 - Contrast Estimation
- Level 2
- One Sample t-test
- Two Sample t-test
FSL
- Bet
- FAST
- FLIRT
- FNIRT
- MCFLIRT
- FSLSmooth
- Level1Design
- FSFL1Maker
FreeSurfer
- Dicom2Nifti - converts dicom to nifti files using mri_convert (knows
a lot of siemens specific fields)
- Recon-all
- Resample - allows one to upsample or downsample data
- BBregister
- Smooth - integrated volume + surface smoothing
- SurfConcat - projects and concatenates con images to a surface for a second level surface-based glm
- OneSampleTTest - surface based glm for second level analysis
Misc
- ArtifactDetection - detects outliers in functional runs based on motion and intensity.
- StimulusCorrelation - detects if stimulus schedule is correlated with motion or intensity
- IO - these are generic routines for structuring data into and out of the pipelines
- DataSource
- DataSink
- DataGrabber