MRtrix3 SIFT Tractogram Filtering¶
Library: MRtrix3 | Docker Image: mrtrix3/mrtrix3
Function¶
Filters tractograms to improve biological plausibility by matching streamline density to FOD lobe integrals.
Modality: Tractogram (.tck) plus FOD image used for tractography.
Typical Use: Improving tractogram biological accuracy before connectome construction.
Key Parameters¶
Key Points¶
Dramatically improves connectome quantification. Run after tckgen. SIFT2 (tcksift2) outputs weights instead of filtering.
Inputs¶
| Name | Type | Required | Label | Flag |
|---|---|---|---|---|
input_tracks |
File |
Yes | Input tractogram | |
fod |
File |
Yes | FOD image for filtering | |
output |
string |
Yes | Output filtered tractogram | |
act |
File |
No | ACT tissue-segmented image | -act |
term_number |
int |
No | Target number of streamlines | -term_number |
term_ratio |
double |
No | Target ratio of streamlines to keep | -term_ratio |
Accepted Input Extensions¶
- input_tracks:
.tck - fod:
.mif,.nii,.nii.gz,.mgh,.mgz - act:
.mif,.nii,.nii.gz,.mgh,.mgz
Outputs¶
| Name | Type | Glob Pattern |
|---|---|---|
filtered_tractogram |
File |
$(inputs.output) |
log |
File |
tcksift.log |
Output Extensions¶
- filtered_tractogram:
.tck
Docker Tags¶
Available versions: latest, 3.0.8, 3.0.7, 3.0.5, 3.0.4, 3.0.3
Categories¶
- Diffusion MRI > MRtrix3 > Tractography