TBSS Step 1: Preprocessing¶
Library: FSL | Docker Image: brainlife/fsl
Function¶
Preprocesses FA images for TBSS by slightly eroding them and zeroing end slices to remove outlier voxels.
Modality: FA maps (3D NIfTI) from dtifit, placed in a common directory.
Typical Use: First step of TBSS pipeline for voxelwise diffusion analysis.
Key Parameters¶
*.nii.gz (all FA images in current directory)
Key Points¶
Run from directory containing all subjects FA images. Creates FA/ subdirectory with preprocessed images. Must be run before tbss_2_reg.
Inputs¶
| Name | Type | Required | Label | Flag |
|---|---|---|---|---|
fa_images |
File[] |
Yes | Input FA images |
Accepted Input Extensions¶
- fa_images:
.nii,.nii.gz
Outputs¶
| Name | Type | Glob Pattern |
|---|---|---|
FA_directory |
Directory |
FA |
log |
File |
tbss_1_preproc.log |
Docker Tags¶
Available versions: latest, 6.0.4-patched2, 6.0.4-patched, 6.0.4, 6.0.4-xenial, 5.0.11, 6.0.0, 6.0.1, 5.0.9
Categories¶
- Diffusion MRI > FSL > TBSS