├── .gitignore ├── README.md ├── data ├── input │ └── README.txt ├── reference │ └── PEDS012 │ │ └── 20131101 │ │ ├── BOLD │ │ ├── PEDS012_20131101_BOLD_MOCOStatsFramewise.csv │ │ └── PEDS012_20131101_BOLD_anatomical.nii.gz │ │ ├── DTI │ │ └── PEDS012_20131101_DTI_fa_anatomical.nii.gz │ │ ├── PCASL │ │ ├── PEDS012_20131101_PCASL_MOCOStatsFramewise.csv │ │ ├── PEDS012_20131101_PCASL_TissueStats.csv │ │ └── PEDS012_20131101_PCASL_meancbf_anatomical.nii.gz │ │ ├── PEDS012_20131101_BrainExtractionMask.nii.gz │ │ ├── PEDS012_20131101_BrainSegmentation.nii.gz │ │ └── PEDS012_20131101_CorticalThickness.nii.gz └── template │ └── README.txt ├── docs ├── README.txt └── logfile.csv ├── figures ├── ._graph.png ├── fibertracts.png ├── graph.png ├── input_dec_axial.png ├── input_dec_coronal.png ├── input_dec_sagittal.png ├── input_dtiaal_axial.png ├── input_dtiaal_coronal.png ├── input_dtiaal_sagittal.png ├── input_dwi_axial.png ├── input_dwi_coronal.png ├── input_dwi_sagittal.png ├── input_dwit1_axial.png ├── input_dwit1_coronal.png ├── input_dwit1_sagittal.png ├── input_fa_axial.png ├── input_fa_coronal.png ├── input_fa_sagittal.png ├── input_md_axial.png ├── input_md_coronal.png ├── input_md_sagittal.png ├── input_rd_axial.png ├── input_rd_coronal.png ├── input_rd_sagittal.png ├── input_t1_axial.png ├── input_t1_coronal.png ├── input_t1_sagittal.png ├── input_t1brain_axial.png ├── input_t1brain_coronal.png ├── input_t1brain_sagittal.png ├── input_t1fullbrain_axial.png ├── input_t1fullbrain_coronal.png ├── input_t1fullbrain_sagittal.png ├── input_t1seg_axial.png ├── input_t1seg_coronal.png ├── input_t1seg_sagittal.png ├── input_t1thick_axial.png ├── input_t1thick_coronal.png ├── input_t1thick_sagittal.png ├── template_t1_axial.png ├── template_t1_coronal.png ├── template_t1_mask_axial.png ├── template_t1_mask_coronal.png ├── template_t1_mask_sagittal.png ├── template_t1_prior_axial.png ├── template_t1_prior_coronal.png ├── template_t1_prior_sagittal.png ├── template_t1_sagittal.png └── thickness_spider.png └── scripts ├── comparison.Rmd ├── process_modalities.sh ├── process_t1.sh ├── run_comparison.R ├── run_test.sh └── warp_labels.sh /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jeffduda/NeuroBattery/HEAD/.gitignore -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jeffduda/NeuroBattery/HEAD/README.md -------------------------------------------------------------------------------- /data/input/README.txt: -------------------------------------------------------------------------------- 1 | http://files.figshare.com/1701182/PEDS012_20131101.zip 2 | -------------------------------------------------------------------------------- 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