ANTs Joint Label Fusion¶
Library: ANTs | Docker Image: antsx/ants
Function¶
Multi-atlas segmentation that combines labels from multiple pre-labeled atlases using joint label fusion with local weighting.
Modality: Target 3D NIfTI volume plus multiple atlas images with corresponding label maps.
Typical Use: High-accuracy segmentation using multiple atlas priors.
Key Parameters¶
-d (dimension), -t (target image), -g (atlas images), -l (atlas labels), -o (output prefix)
Key Points¶
More accurate than single-atlas segmentation. Requires multiple registered atlases. Computationally intensive but highly accurate.
Inputs¶
| Name | Type | Required | Label | Flag |
|---|---|---|---|---|
dimensionality |
int |
Yes | Image dimensionality (2 or 3) | -d |
output_prefix |
string |
Yes | Output prefix for labeled images | -o |
target_image |
File |
Yes | Target image to be labeled | |
atlas_images |
File[] |
Yes | Atlas grayscale images | |
atlas_labels |
File[] |
Yes | Atlas label images corresponding to each atlas | |
mask_image |
File |
No | Mask image for limiting fusion region | -x |
num_threads |
int |
No | Number of parallel threads | -j |
parallel_control |
int |
No | Parallel computation control (0=serial, 1=SGE, 2=PEXEC, 3=SLURM, 4=PBS) | -c |
search_radius |
string |
No | Search radius for similarity measures (e.g., 3x3x3) | -s |
patch_radius |
string |
No | Patch radius for similarity measures (e.g., 2x2x2) | -p |
alpha |
double |
No | Regularization term for matrix inversion (default 0.1) | -a |
beta |
double |
No | Exponent for mapping intensity difference (default 2.0) | -b |
Accepted Input Extensions¶
- target_image:
.nii,.nii.gz - atlas_images:
.nii,.nii.gz - atlas_labels:
.nii,.nii.gz - mask_image:
.nii,.nii.gz
Outputs¶
| Name | Type | Glob Pattern |
|---|---|---|
labeled_image |
File |
$(inputs.output_prefix)Labels.nii.gz |
intensity_fusion |
File |
$(inputs.output_prefix)Intensity.nii.gz |
log |
File |
antsJointLabelFusion.log |
Output Extensions¶
- labeled_image:
.nii.gz - intensity_fusion:
.nii.gz
Docker Tags¶
Available versions: latest, master, v2.6.5, 2.6.5, v2.6.4, 2.6.4, v2.6.3, 2.6.3, v2.6.2, 2.6.2
and 5 more
Categories¶
- Utilities > ANTs > Label Analysis