FreeSurfer Surface Inflation¶
Library: FreeSurfer | Docker Image: freesurfer/freesurfer
Function¶
Inflates folded cortical surface to a smooth shape while minimizing metric distortion for visualization.
Modality: FreeSurfer surface file (e.g., lh.smoothwm).
Typical Use: Creating inflated surfaces for visualization of cortical data.
Key Parameters¶
-n (number of iterations), -dist (target distance)
Key Points¶
Creates inflated surface for visualizing buried cortex. Part of recon-all. Metric distortion encoded in sulc file.
Inputs¶
| Name | Type | Required | Label | Flag |
|---|---|---|---|---|
subjects_dir |
Directory |
Yes | FreeSurfer SUBJECTS_DIR | |
fs_license |
File |
Yes | FreeSurfer license file | |
input |
File |
Yes | Input surface file | |
output |
string |
Yes | Output inflated surface filename | |
n |
int |
No | Maximum number of iterations (default 10) | -n |
dist |
double |
No | Distance for inflation | -dist |
no_save_sulc |
boolean |
No | Do not save sulc file | -no-save-sulc |
sulc |
string |
No | Output sulc filename | -sulc |
nbrs |
int |
No | Number of neighbors for smoothing | -nbrs |
spring |
double |
No | Spring constant | -spring |
area |
double |
No | Area coefficient | -area |
w |
int |
No | Write intermediate surfaces every N iterations | -w |
Accepted Input Extensions¶
- input:
.white,.pial,.smoothwm,.orig,.inflated
Outputs¶
| Name | Type | Glob Pattern |
|---|---|---|
inflated |
File |
$(inputs.output)* |
sulc_file |
File |
$(inputs.sulc), *.sulc |
log |
File |
mris_inflate.log |
Output Extensions¶
- inflated:
.inflated - sulc_file:
.sulc
Docker Tags¶
Available versions: latest, 8.1.0, 8.0.0, 7.2.0, 7.3.0, 7.3.1, 7.3.2, 7.4.1, 7.1.1, 6.0
Categories¶
- Structural MRI > FreeSurfer > Surface Reconstruction