Add demo folders for users to run examples on test data directly

CBICA · Dec 16, 2024 · d65fc70 · d65fc70
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diff --git a/src/Image_Processing/DTI/qsiprep b/src/Image_Processing/DTI/qsiprep
diff --git a/src/Image_Processing/fMRI/fmriprep b/src/Image_Processing/fMRI/fmriprep
diff --git a/src/Image_Processing/fMRI/xcp_d b/src/Image_Processing/fMRI/xcp_d
diff --git a/src/Image_Processing/sMRI/DLICV b/src/Image_Processing/sMRI/DLICV
diff --git a/src/Image_Processing/sMRI/DLMUSE b/src/Image_Processing/sMRI/DLMUSE
diff --git a/src/Machine_Learning/spare_score b/src/Machine_Learning/spare_score
diff --git a/test_data/README.md b/test_data/README.md
@@ -1,3 +1,12 @@
 # Example dataset for testing NiChart
 
-This folder includes publicly available MRI datasets for testing NiChart. Refer to the tutorial videos for examples on how to use these files.
+This folder contains publicly available MRI datasets to help you run NiChart quickly.
+
+#### dicoms/dicoms.zip: 
+- This dataset contains DICOM files, including a T1-weighted scan from a single subject.
+- This is a small dataset intended for testing the complete sMRI Biomarkers pipeline.
+
+#### processed:
+- This folder provides DLMUSE ROI volumes and demographic data for a larger sample size (n=100) from the IXI dataset.
+- This dataset is for testing the sMRI Biomarkers pipeline starting with pre-existing DLMUSE results.
+
diff --git a/test_data/Test_Dicom b/test_data/Test_Dicom
diff --git a/test_data/Test_NiChart_ADNI3 b/test_data/Test_NiChart_ADNI3
diff --git a/test_data/dicoms.zip b/test_data/dicoms.zip
diff --git a/test_data/dicoms/Lists/dicoms_Demog_n2.csv → test_data/dicoms/Lists/dicoms_Demog_n1.csv b/test_data/dicoms/Lists/dicoms_Demog_n2.csv → test_data/dicoms/Lists/dicoms_Demog_n1.csv
@@ -1,3 +1,2 @@
 MRID,Age,Sex
-02_20130717,45,M
 rorden_lab_20100723,50,M
diff --git a/test_data/dicoms/README.md b/test_data/dicoms/README.md
@@ -1,8 +1,7 @@
-# Example dataset with dicom files of structural T1-weighted scans
+# Example dataset with dicom files for a structural T1-weighted scan
 
-Dicom files for 2 subjects. Please see the following links for data sources and licenses: 
+Dicom files for 1 subject's T1 scan. Please see the following link for data source and license: 
 
 - [dcm2nii Sample Dicom Images](https://www.nitrc.org/plugins/mwiki/index.php/dcm2nii:MainPage#Sample_DICOM_Images)
-- [Hanke et. al. Example Dicom Dataset](https://github.com/datalad/example-dicom-structural)
 
 **Note:** A sample demographic file with randomly generated Age and Sex values is provided for illustrative purposes.
diff --git a/test_data/dicoms/example-dicom-structural/dicoms/N2D_0001.dcm b/test_data/dicoms/example-dicom-structural/dicoms/N2D_0001.dcm
diff --git a/test_data/dicoms/example-dicom-structural/dicoms/N2D_0002.dcm b/test_data/dicoms/example-dicom-structural/dicoms/N2D_0002.dcm
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diff --git a/test_data/dicoms/example-dicom-structural/dicoms/N2D_0005.dcm b/test_data/dicoms/example-dicom-structural/dicoms/N2D_0005.dcm
diff --git a/test_data/dicoms/example-dicom-structural/dicoms/N2D_0006.dcm b/test_data/dicoms/example-dicom-structural/dicoms/N2D_0006.dcm
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diff --git a/test_data/dicoms/example-dicom-structural/dicoms/N2D_0011.dcm b/test_data/dicoms/example-dicom-structural/dicoms/N2D_0011.dcm
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