AFNI 3D Seed-Based Correlation (3dTcorr1D)¶
Library: AFNI | Docker Image: brainlife/afni
Function¶
Computes voxelwise correlation between a 4D dataset and one or more 1D seed time series.
Modality: 4D fMRI NIfTI/AFNI time series plus 1D seed time series file.
Typical Use: Seed-based functional connectivity analysis.
Key Parameters¶
-prefix (output), <4D_dataset> <1D_seed_timeseries>
Key Points¶
Simple seed-based correlation. Extract seed time series first (e.g., with 3dmaskave).
Inputs¶
| Name | Type | Required | Label | Flag |
|---|---|---|---|---|
xset |
File |
Yes | Input 3D+time dataset | |
y1D |
File |
Yes | 1D reference time series file | |
prefix |
string |
Yes | Output dataset prefix | -prefix |
pearson |
boolean |
No | Pearson product moment correlation (default) | -pearson |
spearman |
boolean |
No | Spearman rank correlation | -spearman |
quadrant |
boolean |
No | Quadrant correlation coefficient | -quadrant |
ktaub |
boolean |
No | Kendall tau_b coefficient | -ktaub |
dot |
boolean |
No | Calculate dot product instead of correlation | -dot |
Fisher |
boolean |
No | Apply Fisher (arctanh) transformation | -Fisher |
mask |
File |
No | Only process voxels nonzero in mask | -mask |
float |
boolean |
No | Save results in float format (default) | -float |
short |
boolean |
No | Save results in scaled short format | -short |
Accepted Input Extensions¶
- xset:
.nii,.nii.gz,+orig.HEAD,+orig.BRIK,+tlrc.HEAD,+tlrc.BRIK - y1D:
.1D,.txt - mask:
.nii,.nii.gz,+orig.HEAD,+orig.BRIK,+tlrc.HEAD,+tlrc.BRIK
Outputs¶
| Name | Type | Glob Pattern |
|---|---|---|
correlation |
File |
$(inputs.prefix)+orig.HEAD, $(inputs.prefix)+tlrc.HEAD |
log |
File |
$(inputs.prefix).log |
Output Extensions¶
- correlation:
+orig.HEAD,+orig.BRIK,+tlrc.HEAD,+tlrc.BRIK
Docker Tags¶
Available versions: latest, 16.3.0
Categories¶
- Functional MRI > AFNI > Connectivity