Outputs of fcdproc

fcdproc generates 3 classes of outcomes:

** Derivative (preprocessed data)**
** Model & data ** includes PCA, GAUSS, FCD-detector models as well as Average Controls data fro both hemispheres

3. ** Projections ** 8 HTML reports per MRI(-) subject, indicating similarity map on top of inflated pial surface.

Layout

Assuming fcdproc is invoked with:

fmriprep <input_dir>/ <output_dir>/ participant analysis_type [OPTIONS]

Preprocessed Data

Preprocessed, or derivative data are written to <output dir>/fcdproc/<subject_label>/

<output_dir>/
  fcdproc/
    <subject_label>/
      data/
          std.60.<subject_label>_both.spec/
          std.60.<subject_label>_[LR].spec/
          std.60.[LR].pial.gii\
          std.60.[LR].white.gii\
          std.60.[LR].sphere.gii\
          std.60.[LR].sphere.reg.gii\
          std.60.[LR].smoothwm.gii\
          std.60.[LR].inflated.gii\
          std.60.[LR].inf_200.gii\
          std.60.[LR].aparc.a2009s.annot.niml.dset\
          SurfVol_Alnd+orig.(BRIK/HEAD)\
          T1_axialize.nii.gz\
          dset/
            std.60.[LR].curve.1D.dset/
            std.60.[LR].sulc.1D.dset/
            std.60.[LR].sel_ctx.1D.dset/
            std.60.[LR].thickness.fwhm5.1D.dset/
            std.60.[LR].w-g.pct.fwhm5.1D.dset/
            std.60.[LR].T1_features.1D.dset/
            std.60.[LR].T2_features.1D.dset/
            std.60.[LR].FL_features.1D.dset/
            std.60.[LR].features.1D.dset/
            std.60.[LR].features.globalSTD.1D.dset/
            std.60.[LR].features.globalSTD.PCA.1D.dset/
            std.60.[LR].features.globalSTD.PCA.GAUSS.NITER{1..10}.1D.dset/
            std.60.[LR].features.globalSTD.PCA.GAUSS.fwhm10.1D.dset/

Normative Data & FCD-Detector Model

Models and normative data are written to <output dir>/fcdproc/

<output_dir>/
  fcdproc/
    data/
      globalSTD.PCA/
      features.globalSTD.PCA.GAUSS.NITER{1..10}/
      lh_avg.1D.dset/
      rh_avg.1D.dset/
    model/
      PCA.globalSTD/
      GAUSS.NITER{1..10}.features.globalSTD.PCA\
      fcd_detector\

Projections

Similarity map of MRI negative patients are written to <output dir>/fcdproc/<subject_label>/data/dset/projections/

<output_dir>/
  fcdproc/
    <subject_label>/
      data/
        dset/
          projections/
            std.60.[LR].fcd_proj_{0,1}.1D.dset/
            [LR]_[inflated/pial_inflated]_surf_[normalized/unnormalized]_projection.html/