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docs2/components.rst

@@ -10,26 +10,77 @@ Current Pipelines
 
 These pipelines are currently active and accessible within the NiChart Project
 
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-sMRI Biomarkers of Disease and Aging
-------------------------------------
+====================================
+1. sMRI Biomarkers of Disease and Aging
+====================================
 
-Neuroimaging pipeline for computing AI biomarkers of disease and aging from T1-weighted MRI scans
+Neuroimaging pipeline for computing AI biomarkers of disease and aging from T1-weighted MRI scans. The pipeline applies the following steps for processign and analysis.
 
-----------------------
-WM Lesion Segmentation
-----------------------
+------------
+Segmentation
+------------
+
+`DLMUSE <https://neuroimagingchart.com/components/#Image%20Processing>`: Rapid and accurate **brain anatomy segmentation**
+
+.. image:: https://github.com/CBICA/NiChart_Project/blob/031d1cafc5091eb514511ee25af189d5f0b5ac56/resources/images/dlicv%2Bdlmuse_segmask.png
+   :target https://github.com/CBICA/NiChart_DLMUSE
+   :alt: DLMUSE
+
+-------------
+Harmonization
+-------------
+
+`COMBAT <https://neuroimagingchart.com/components/#Harmonization>`: **Statistical data harmonization** of ROI volumes to `reference data <https://neuroimagingchart.com/components/#Reference%20Dataset>`
+
+.. image:: https://raw.githubusercontent.com/CBICA/NiChart_Project/refs/heads/ge-dev/resources/images/combat_agetrend.png
+   :alt: COMBAT
+
+------------------------
+Supervised ML Biomarkers
+------------------------
+
+`SPARE-AD and SPARE-Age indices <https://neuroimagingchart.com/components/##Machine%20Learning%20Models>`: AI biomarkers of **Alzheimer's Disease and Aging** related brain atrophy patterns
+
+.. image:: https://raw.githubusercontent.com/CBICA/NiChart_Project/refs/heads/ge-dev/resources/images/sparead%2Bage.png
+  :target https://github.com/CBICA/spare_scores
+  :alt: SPARE-AD and SPARE-Age indices
+
+`SPARE-CVR indices <https://alz-journals.onlinelibrary.wiley.com/doi/abs/10.1002/alz.067709>`: AI biomarkers of brain atrophy patterns associated with **Cardio-Vascular Risk Factors**
+
+.. image:: https://raw.githubusercontent.com/CBICA/NiChart_Project/refs/heads/ge-dev/resources/images/sparecvr.png
+  :alt: SPARE-CVR indices, Govindarajan, S.T., et. al., Nature Communications, 2024
+
+-----------------------------
+Semi-supervised ML Biomarkers
+-----------------------------
+
+ - `SurrealGAN indices <https://www.nature.com/articles/d41586-024-02692-z>`: Data-driven phenotyping of brain aging, **5 Brain Aging Subtypes**
+
+.. image:: https://raw.githubusercontent.com/CBICA/NiChart_Project/refs/heads/ge-dev/resources/images/sgan1.jpg
+   :alt: SurrrealGAN indices
+
+====================================
+2. WM Lesion Segmentation
+====================================
+
+Neuroimaging pipeline for segmenting white matter lesions on FLAIR MRI scans. 
+
+`DLWMLS <https://neuroimagingchart.com/components/#Image%20Processing>`: Rapid and accurate **white matter lesion segmentation**
+
+.. image:: https://github.com/CBICA/NiChart_Project/blob/031d1cafc5091eb514511ee25af189d5f0b5ac56/resources/images/dlwmls.png
+   :target https://github.com/CBICA/NiChart_DLWMLS
+   :alt: DLWMLS
 
 *****************
 Under Development
 *****************
 
 These pipelines are planned for integration in future NiChart releases.
 
------------------------------------
-DTI Biomarkers of Disease and Aging
------------------------------------
+====================================
+1. DTI Biomarkers of Disease and Aging
+====================================
 
-------------------------------------
-fMRI Biomarkers of Disease and Aging
-------------------------------------
+====================================
+2. fMRI Biomarkers of Disease and Aging
+====================================