diff --git a/dataset_listing.tsv b/dataset_listing.tsv index 2b0a8afd2..0cdba3ba4 100644 --- a/dataset_listing.tsv +++ b/dataset_listing.tsv @@ -82,3 +82,8 @@ mrs_fmrs Functional MRS data involving a pain stimulus task from 15 subjects [li 2d_mb_pcasl Siemens 2D MultiBand Multi-delay PCASL (m0 and noRF included within timeseries) [link](https://osf.io/xrkc4/) [@aptinis](https://github.com/aptinis) anat, fmap, perf T1w, asl, aslcontext, epi xeeg_hed_score EEG and iEEG data with annotations of artifacts, seizures and modulators using HED-SCORE [@dorahermes](https://github.com/dorahermes) anat, eeg, ieeg T1w, channels, coordsystem, eeg, electrodes, events, ieeg dwi_deriv exemplifies the storage of diffusion MRI derivates that may be generated on the Siemens XA platform. dwi dwi +ps13-pipeline Example PS13 PET atlas pipeline outputs [link](https://doi.org/10.18112/openneuro.ds004401.v1.3.0) [@bids-standard](https://github.com/bids-standard) pet pet,dseg +ps13rev2034-pipeline Revision of PS13 PET atlas outputs [link](https://doi.org/10.18112/openneuro.ds004401.v1.3.0) [@bids-standard](https://github.com/bids-standard) pet pet,dseg +ps13-study-template PS13 atlas in study-specific template with conversions [@bids-standard](https://github.com/bids-standard) pet pet,dseg +ps13-study-template-rev PS13 study template with atlas revision [@bids-standard](https://github.com/bids-standard) pet pet,dseg +suit-pipeline Example SUIT cerebellum atlas pipeline outputs [link](https://github.com/jdiedrichsen/suit) [@bids-standard](https://github.com/bids-standard) anat T1w,dseg,probseg,surf,shape diff --git a/ps13-pipeline/.SKIP_VALIDATION b/ps13-pipeline/.SKIP_VALIDATION new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/atlas-ps13_description.json b/ps13-pipeline/atlas-ps13_description.json new file mode 100644 index 000000000..02dd77034 --- /dev/null +++ b/ps13-pipeline/atlas-ps13_description.json @@ -0,0 +1,6 @@ +{ + "AtlasName": "PS13 COX-1 PET atlas", + "AtlasSampleSize": 13, + "SpatialReference": "MNI152Lin", + "Description": "Example atlas generated from PS13 PET data" +} diff --git a/ps13-pipeline/dataset_description.json b/ps13-pipeline/dataset_description.json new file mode 100644 index 000000000..254010faf --- /dev/null +++ b/ps13-pipeline/dataset_description.json @@ -0,0 +1,11 @@ +{ + "Name": "PS13 pipeline example", + "BIDSVersion": "1.10.0", + "DatasetType": "derivative", + "GeneratedBy": [ + { + "Name": "PS13 Pipeline", + "Version": "1.0" + } + ] +} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_dseg.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_dseg.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_dseg.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_dseg.tsv b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_desc-spmvbmNopvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_desc-spmvbmNopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_desc-spmvbmNopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_desc-spmvbmNopvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_desc-spmvbmNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_desc-spmvbmPvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_desc-spmvbmPvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_desc-spmvbmPvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_desc-spmvbmPvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_desc-spmvbmPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_stat-std_desc-spmvbmNopvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_stat-std_desc-spmvbmNopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_stat-std_desc-spmvbmNopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_stat-std_desc-spmvbmNopvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_stat-std_desc-spmvbmNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_stat-std_desc-spmvbmPvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_stat-std_desc-spmvbmPvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_stat-std_desc-spmvbmPvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_stat-std_desc-spmvbmPvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-1p5_stat-std_desc-spmvbmPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-fnirtNopvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-fnirtNopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-fnirtNopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-fnirtNopvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-fnirtNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-fnirtPvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-fnirtPvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-fnirtPvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-fnirtPvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-fnirtPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-nopvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-nopvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-pvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-pvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-fnirtNopvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-fnirtNopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-fnirtNopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-fnirtNopvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-fnirtNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-fnirtPvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-fnirtPvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-fnirtPvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-fnirtPvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-fnirtPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-nopvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-nopvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-pvc_pet.json b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-pvc_pet.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_res-2_stat-std_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_seg-nopvc_dseg.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_seg-pvc_dseg.nii.gz b/ps13-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-nopvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-nopvc_pet.json new file mode 100644 index 000000000..419e052f0 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "fsaverage space PET without PVC"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-nopvc_pet.nii.gz b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-pvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-pvc_pet.nii.gz b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_dseg.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_dseg.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_dseg.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_dseg.tsv b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-nopvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-nopvc_pet.shape.gii b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-pvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-pvc_pet.shape.gii b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.shape.gii b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.shape.gii b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-nopvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-nopvc_pet.shape.gii b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-pvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-pvc_pet.shape.gii b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.shape.gii b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.shape.gii b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_seg-nopvc_dseg.nii.gz b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_seg-pvc_dseg.nii.gz b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-nopvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-nopvc_pet.nii.gz b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-pvc_pet.json b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-pvc_pet.nii.gz b/ps13-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/.SKIP_VALIDATION b/ps13-study-template-rev/.SKIP_VALIDATION new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/atlas-ps13_description.json b/ps13-study-template-rev/atlas-ps13_description.json new file mode 100644 index 000000000..f42cf0363 --- /dev/null +++ b/ps13-study-template-rev/atlas-ps13_description.json @@ -0,0 +1,6 @@ +{ + "AtlasName": "PS13 COX-1 PET atlas", + "AtlasSampleSize": 13, + "SpatialReference": "ps13", + "Description": "Study-specific template atlas" +} diff --git a/ps13-study-template-rev/atlas-ps13rev2034_description.json b/ps13-study-template-rev/atlas-ps13rev2034_description.json new file mode 100644 index 000000000..5ac4408b3 --- /dev/null +++ b/ps13-study-template-rev/atlas-ps13rev2034_description.json @@ -0,0 +1,6 @@ +{ + "AtlasName": "PS13 COX-1 PET atlas revision 2034", + "AtlasSampleSize": 13, + "SpatialReference": "ps13", + "Description": "Updated manual segmentation in study template" +} diff --git a/ps13-study-template-rev/dataset_description.json b/ps13-study-template-rev/dataset_description.json new file mode 100644 index 000000000..772c3fe39 --- /dev/null +++ b/ps13-study-template-rev/dataset_description.json @@ -0,0 +1,8 @@ +{ + "Name": "PS13 study-specific template pipeline with revision", + "BIDSVersion": "1.10.0", + "DatasetType": "derivative", + "GeneratedBy": [ + {"Name": "PS13 Pipeline", "Version": "2034"} + ] +} diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_desc-nopvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_desc-nopvc_pet.json new file mode 100644 index 000000000..982ea3162 --- /dev/null +++ b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "PET without PVC"} diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_desc-nopvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_desc-pvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_desc-pvc_pet.json new file mode 100644 index 000000000..5a3ee9525 --- /dev/null +++ b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "PET with PVC"} diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_desc-pvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_dseg.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_dseg.json new file mode 100644 index 000000000..ec7ef1c3b --- /dev/null +++ b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_dseg.json @@ -0,0 +1 @@ +{"Description": "Segmentation in MNI152Lin"} diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_dseg.tsv b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmNopvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmNopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmNopvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmPvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmPvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmPvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmNopvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmNopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmNopvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmPvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmPvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmPvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_desc-fnirtNopvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_desc-fnirtNopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_desc-fnirtNopvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_desc-fnirtNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_desc-fnirtPvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_desc-fnirtPvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_desc-fnirtPvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_desc-fnirtPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_desc-nopvc_pet.json 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a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtNopvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtNopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtNopvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtPvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtPvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtPvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-nopvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-nopvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-pvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-pvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_res-2_stat-std_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_seg-nopvc_dseg.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_seg-pvc_dseg.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13rev2034_dseg.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13rev2034_dseg.json new file mode 100644 index 000000000..ec7ef1c3b --- /dev/null +++ b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13rev2034_dseg.json @@ -0,0 +1 @@ +{"Description": "Segmentation in MNI152Lin"} diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13rev2034_dseg.tsv b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13rev2034_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13rev2034_seg-nopvc_dseg.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13rev2034_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13rev2034_seg-pvc_dseg.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_atlas-ps13rev2034_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_desc-nopvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_desc-nopvc_pet.json new file mode 100644 index 000000000..419e052f0 --- /dev/null +++ b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "fsaverage space PET without PVC"} diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_desc-nopvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_desc-pvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_desc-pvc_pet.json new file mode 100644 index 000000000..80e0659b5 --- /dev/null +++ b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "fsaverage space PET with PVC"} diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_desc-pvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_dseg.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_dseg.json new file mode 100644 index 000000000..705b67c67 --- /dev/null +++ b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_dseg.json @@ -0,0 +1 @@ +{"Description": "Segmentation labels"} diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_dseg.tsv b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_desc-nopvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_desc-nopvc_pet.shape.gii b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_desc-pvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_desc-pvc_pet.shape.gii b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_stat-std_desc-nopvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_stat-std_desc-nopvc_pet.shape.gii b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_stat-std_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-L_den-164k_stat-std_desc-pvc_pet.json 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a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-R_den-164k_stat-std_desc-nopvc_pet.shape.gii b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-R_den-164k_stat-std_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-R_den-164k_stat-std_desc-pvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-R_den-164k_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-R_den-164k_stat-std_desc-pvc_pet.shape.gii b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_hemi-R_den-164k_stat-std_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_seg-nopvc_dseg.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_seg-pvc_dseg.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_stat-std_desc-nopvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_stat-std_desc-nopvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_stat-std_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_stat-std_desc-pvc_pet.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_stat-std_desc-pvc_pet.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13_stat-std_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13rev2034_dseg.json b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13rev2034_dseg.json new file mode 100644 index 000000000..705b67c67 --- /dev/null +++ b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13rev2034_dseg.json @@ -0,0 +1 @@ +{"Description": "Segmentation labels"} diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13rev2034_dseg.tsv b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13rev2034_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13rev2034_seg-nopvc_dseg.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13rev2034_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13rev2034_seg-pvc_dseg.nii.gz b/ps13-study-template-rev/tpl-ps13/pet/tpl-ps13_space-fsaverage_atlas-ps13rev2034_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/.SKIP_VALIDATION b/ps13-study-template/.SKIP_VALIDATION new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/atlas-ps13_description.json b/ps13-study-template/atlas-ps13_description.json new file mode 100644 index 000000000..f42cf0363 --- /dev/null +++ b/ps13-study-template/atlas-ps13_description.json @@ -0,0 +1,6 @@ +{ + "AtlasName": "PS13 COX-1 PET atlas", + "AtlasSampleSize": 13, + "SpatialReference": "ps13", + "Description": "Study-specific template atlas" +} diff --git a/ps13-study-template/dataset_description.json b/ps13-study-template/dataset_description.json new file mode 100644 index 000000000..40cf575db --- /dev/null +++ b/ps13-study-template/dataset_description.json @@ -0,0 +1,8 @@ +{ + "Name": "PS13 study-specific template pipeline", + "BIDSVersion": "1.10.0", + "DatasetType": "derivative", + "GeneratedBy": [ + {"Name": "PS13 Pipeline", "Version": "1.0"} + ] +} diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_desc-nopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_desc-nopvc_pet.json new file mode 100644 index 000000000..982ea3162 --- /dev/null +++ b/ps13-study-template/tpl-ps13/pet/tpl-ps13_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "PET without PVC"} diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_desc-nopvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_desc-pvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_desc-pvc_pet.json new file mode 100644 index 000000000..5a3ee9525 --- /dev/null +++ b/ps13-study-template/tpl-ps13/pet/tpl-ps13_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "PET with PVC"} diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_desc-pvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_dseg.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_dseg.json new file mode 100644 index 000000000..ec7ef1c3b --- /dev/null +++ b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_dseg.json @@ -0,0 +1 @@ +{"Description": "Segmentation in MNI152Lin"} diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_dseg.tsv b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_desc-spmvbmNopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_desc-spmvbmNopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_desc-spmvbmNopvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_desc-spmvbmNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_desc-spmvbmPvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_desc-spmvbmPvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_desc-spmvbmPvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_desc-spmvbmPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_stat-std_desc-spmvbmNopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_stat-std_desc-spmvbmNopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_stat-std_desc-spmvbmNopvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_stat-std_desc-spmvbmNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_stat-std_desc-spmvbmPvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_stat-std_desc-spmvbmPvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_stat-std_desc-spmvbmPvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-1p5_stat-std_desc-spmvbmPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-fnirtNopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-fnirtNopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-fnirtNopvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-fnirtNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-fnirtPvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-fnirtPvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-fnirtPvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-fnirtPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-nopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-nopvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-pvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-pvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-fnirtNopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-fnirtNopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-fnirtNopvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-fnirtNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-fnirtPvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-fnirtPvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-fnirtPvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-fnirtPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-nopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-nopvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-pvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-pvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_res-2_stat-std_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_seg-nopvc_dseg.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_seg-pvc_dseg.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-MNI152Lin_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_desc-nopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_desc-nopvc_pet.json new file mode 100644 index 000000000..419e052f0 --- /dev/null +++ b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "fsaverage space PET without PVC"} diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_desc-nopvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_desc-pvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_desc-pvc_pet.json new file mode 100644 index 000000000..80e0659b5 --- /dev/null +++ b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "fsaverage space PET with PVC"} diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_desc-pvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_dseg.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_dseg.json new file mode 100644 index 000000000..705b67c67 --- /dev/null +++ b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_dseg.json @@ -0,0 +1 @@ +{"Description": "Segmentation labels"} diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_dseg.tsv b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_desc-nopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_desc-nopvc_pet.shape.gii b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_desc-pvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_desc-pvc_pet.shape.gii b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.shape.gii b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.shape.gii b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_desc-nopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_desc-nopvc_pet.shape.gii b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_desc-pvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_desc-pvc_pet.shape.gii b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.shape.gii b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.shape.gii b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_seg-nopvc_dseg.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_seg-pvc_dseg.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_stat-std_desc-nopvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_stat-std_desc-nopvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_stat-std_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_stat-std_desc-pvc_pet.json b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..e69de29bb diff --git a/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_stat-std_desc-pvc_pet.nii.gz b/ps13-study-template/tpl-ps13/pet/tpl-ps13_space-fsaverage_stat-std_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/.SKIP_VALIDATION b/ps13rev2034-pipeline/.SKIP_VALIDATION new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/atlas-ps13_description.json b/ps13rev2034-pipeline/atlas-ps13_description.json new file mode 100644 index 000000000..02dd77034 --- /dev/null +++ b/ps13rev2034-pipeline/atlas-ps13_description.json @@ -0,0 +1,6 @@ +{ + "AtlasName": "PS13 COX-1 PET atlas", + "AtlasSampleSize": 13, + "SpatialReference": "MNI152Lin", + "Description": "Example atlas generated from PS13 PET data" +} diff --git a/ps13rev2034-pipeline/dataset_description.json b/ps13rev2034-pipeline/dataset_description.json new file mode 100644 index 000000000..4ef4ede63 --- /dev/null +++ b/ps13rev2034-pipeline/dataset_description.json @@ -0,0 +1,11 @@ +{ + "Name": "PS13 pipeline revision 2034 example", + "BIDSVersion": "1.10.0", + "DatasetType": "derivative", + "GeneratedBy": [ + { + "Name": "PS13 Pipeline", + "Version": "2034" + } + ] +} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/atlas-ps13rev2034_description.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/atlas-ps13rev2034_description.json new file mode 100644 index 000000000..b14390c51 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/atlas-ps13rev2034_description.json @@ -0,0 +1,6 @@ +{ + "AtlasName": "PS13 COX-1 PET atlas revision 2034", + "AtlasSampleSize": 13, + "SpatialReference": "MNI152Lin", + "Description": "Updated manual segmentation with new regions" +} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_dseg.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_dseg.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_dseg.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_dseg.tsv b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmNopvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmNopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmNopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmNopvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmPvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmPvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmPvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmPvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_desc-spmvbmPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmNopvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmNopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmNopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmNopvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmPvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmPvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmPvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmPvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-1p5_stat-std_desc-spmvbmPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-fnirtNopvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-fnirtNopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-fnirtNopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-fnirtNopvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-fnirtNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-fnirtPvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-fnirtPvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-fnirtPvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-fnirtPvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-fnirtPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-nopvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-nopvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-pvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-pvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtNopvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtNopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtNopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtNopvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtNopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtPvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtPvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtPvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtPvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-fnirtPvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-nopvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-nopvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-pvc_pet.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-pvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_res-2_stat-std_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_seg-nopvc_dseg.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_seg-pvc_dseg.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13rev2034_dseg.json b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13rev2034_dseg.json new file mode 100644 index 000000000..409fd19df --- /dev/null +++ b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13rev2034_dseg.json @@ -0,0 +1 @@ +{"Description": "Updated atlas segmentation"} diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13rev2034_dseg.tsv b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13rev2034_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13rev2034_seg-nopvc_dseg.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13rev2034_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13rev2034_seg-pvc_dseg.nii.gz b/ps13rev2034-pipeline/tpl-MNI152Lin/pet/tpl-MNI152Lin_atlas-ps13rev2034_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-nopvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-nopvc_pet.json new file mode 100644 index 000000000..419e052f0 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "fsaverage space PET without PVC"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-nopvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-pvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-pvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_dseg.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_dseg.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_dseg.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_dseg.tsv b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-nopvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-nopvc_pet.shape.gii b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-pvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-pvc_pet.shape.gii b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.shape.gii b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.shape.gii b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-L_den-164k_stat-std_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-nopvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-nopvc_pet.shape.gii b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-pvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-pvc_pet.shape.gii b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.shape.gii b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-nopvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.shape.gii b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_hemi-R_den-164k_stat-std_desc-pvc_pet.shape.gii new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_seg-nopvc_dseg.nii.gz b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_seg-nopvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_seg-pvc_dseg.nii.gz b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_seg-pvc_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-nopvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-nopvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-nopvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-nopvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-nopvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-pvc_pet.json b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-pvc_pet.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-pvc_pet.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-pvc_pet.nii.gz b/ps13rev2034-pipeline/tpl-fsaverage/pet/tpl-fsaverage_stat-std_desc-pvc_pet.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/.SKIP_VALIDATION b/suit-pipeline/.SKIP_VALIDATION new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/dataset_description.json b/suit-pipeline/dataset_description.json new file mode 100644 index 000000000..33978e886 --- /dev/null +++ b/suit-pipeline/dataset_description.json @@ -0,0 +1,8 @@ +{ + "Name": "SUIT pipeline example", + "BIDSVersion": "1.10.0", + "DatasetType": "derivative", + "GeneratedBy": [ + {"Name": "SUIT Pipeline", "Version": "1.0"} + ] +} diff --git a/suit-pipeline/tpl-SUIT/anat/atlas-Buckner2011_description.json b/suit-pipeline/tpl-SUIT/anat/atlas-Buckner2011_description.json new file mode 100644 index 000000000..33cce9816 --- /dev/null +++ b/suit-pipeline/tpl-SUIT/anat/atlas-Buckner2011_description.json @@ -0,0 +1,10 @@ +{ + "AtlasName": "SUIT Buckner2011 atlas", + "AtlasSampleSize": 1000, + "SpatialReference": "https://templateflow.s3.amazonaws.com/tpl-MNI152Lin_res-01_T1w.nii.gz", + "License": "LICENSE file", + "ReferencesAndLinks": [ + "https://doi.org/10.1152/jn.00339.2011" + ], + "Species": "Human" +} diff --git a/suit-pipeline/tpl-SUIT/anat/atlas-Diedrichsen2009_description.json b/suit-pipeline/tpl-SUIT/anat/atlas-Diedrichsen2009_description.json new file mode 100644 index 000000000..21de19906 --- /dev/null +++ b/suit-pipeline/tpl-SUIT/anat/atlas-Diedrichsen2009_description.json @@ -0,0 +1,10 @@ +{ + "AtlasName": "SUIT Diedrichsen2009 atlas", + "AtlasSampleSize": 20, + "SpatialReference": "https://templateflow.s3.amazonaws.com/tpl-MNI152Lin_res-01_T1w.nii.gz", + "License": "LICENSE file", + "ReferencesAndLinks": [ + "https://doi.org/10.1016/j.neuroimage.2009.01.045" + ], + "Species": "Human" +} diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_T1w.nii.gz b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_T1w.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_dseg.json b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_dseg.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_dseg.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-17n_dseg.label.gii b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-17n_dseg.label.gii new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-17n_dseg.nii.gz b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-17n_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-17n_dseg.tsv b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-17n_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-17n_stat-confidence_probseg.nii.gz b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-17n_stat-confidence_probseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-7n_dseg.label.gii b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-7n_dseg.label.gii new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-7n_dseg.nii.gz b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-7n_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-7n_dseg.tsv b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-7n_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-7n_stat-confidence_probseg.nii.gz b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Buckner2011_seg-7n_stat-confidence_probseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_dseg.json b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_dseg.json new file mode 100644 index 000000000..79048cf67 --- /dev/null +++ b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_dseg.json @@ -0,0 +1 @@ +{"Description": "Example metadata"} diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_dseg.label.gii b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_dseg.label.gii new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_dseg.nii.gz b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_dseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_dseg.tsv b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_dseg.tsv new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_probseg.nii.gz b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_atlas-Diedrichsen2009_probseg.nii.gz new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_flat.surf.gii b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_flat.surf.gii new file mode 100644 index 000000000..e69de29bb diff --git a/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_sulc.shape.gii b/suit-pipeline/tpl-SUIT/anat/tpl-SUIT_sulc.shape.gii new file mode 100644 index 000000000..e69de29bb