Suggested Pipelines

{{#mermaid:graph LR

 DoStuff --> DoMoreStuff;
 DoMoreStuff --> DoEvenMoreStuff;
 DoEvenMoreStuff --> PublishNaturePaper;

}}

Basic Synthetic Aperture Magnetometry Workflow

{{#mermaid:graph LR subgraph SAM

 Covariance --> Beamformer;
 Beamformer --> image["3D Images"];

end subgraph MRI

 MRI["Structural MRI"] --> ortho["Processed MRI
ortho+tlrc"];
 ortho --> Beamformer;

end }}

{{#mermaid:graph LR subgraph SAM

 sam_cov --> sam_wts;
 sam_wts --> sam_3d;
 sam_3d --> AFNI;
 AFNI --> sam_wts;
 AFNI --> sam_cov;

end }}

1. Create covariance matrices using sam_cov.
2. Compute beamformer weights with sam_wts.
3. sam_3d uses the weights to compute volumetric images of activity estimates.
4. View them with AFNI.
5. It didn't work, go back and try again.
6. Nope, still didn't work, try this instead.