source notes
------------
Unless otherwise indicated, all R code (.R, .rnw) files were written by Joset A. Etzel. The tutorials sometimes include images copied or transformed from other sources, as noted here. This is intended to be a convenience for running the tutorials, not as a mirror of the original sources - please obtain the files from their original source if you want to use them for other purposes, as these may not be the most recent versions, and are usually just a few files from a much larger collection. For example, surfaces are available in many more inflations than included here.
under "knitr tutorials", "volumetric (NIfTI) brain plotting":
- **S1200_AverageT1w_81x96x81.nii.gz** (https://osf.io/6hdxv/) is a resampled (via afni 3dresample) version of S1200_AverageT1w_restore.nii.gz, the HCP 1200 Group Average anatomy, available from https://balsa.wustl.edu/file/show/7qX8N. This is in MNI space.
- **Schaefer2018_400x7_81x96x81.nii.gz** (https://osf.io/t7crv/) is a resampled (via afni 3dresample) version of Schaefer2018_400Parcels_7Networks_order_FSLMNI152_1mm.nii.gz,
available at https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal.
- Those two images were resampled to match continuousOverlay.nii.gz, a statistic image derived from the DMCC13benchmark dataset, 10.18112/openneuro.ds002152.v1.0.1.
under "knitr tutorials", "surface (GIFTI) brain plotting":
- **fsaverage5_lh.inflated_avg.surf.gii**, **fsaverage5_rh.inflated_avg.surf.gii**, **fsaverage5_lh.pial_avg.surf.gii**, and **fsaverage5_rh.pial_avg.surf.gii** are gifti versions (converted with mris_convert) of the freesurfer fsaverage5 surfaces (e.g., /usr/local/freesurfer/subjects/fsaverage5/surf/lh.inflated_avg).
- **Schaefer2018_400Parcels_7Networks_order_10K_L.label.gii** and **Schaefer2018_400Parcels_7Networks_order_10K_R.label.gii** is from https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal/.
- **S1200.L.inflated_MSMAll.32k_fs_LR.surf.gii** and **S1200.R.inflated_MSMAll.32k_fs_LR.surf.gii** are part of the HCP 1200 Group Average anatomy files, available from https://balsa.wustl.edu/reference/show/pkXDZ.
- **mmpL.func.gii** and **mmpR.func.gii** were extracted (with wb_command -cifti-separate) from the MMP cifti file Q1-Q6_RelatedValidation210.CorticalAreas_dil_Final_Final_Areas_Group_Colors.32k_fs_LR.dlabel.nii, available at https://balsa.wustl.edu/study/show/RVVG.
