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1		-== **Overview** ==
	1	+==== **Overview** ====
2	2
3	3	This project develops a **tridimensional diagnostic framework** for **CNS diseases**, incorporating **AI-powered annotation tools** to improve **interpretability, standardization, and clinical utility**. The methodology integrates **multi-modal data**, including **genetic, neuroimaging, neurophysiological, and biomarker datasets**, and applies **machine learning models** to generate **structured, explainable diagnostic outputs**.
4	4
5		-== **Workflow** ==
	5	+=== **Workflow** ===
6	6
7	7	1. (((
8	8	**We Use GitHub to [[Store and develop AI models, scripts, and annotation pipelines.>>https://github.com/Fundacion-de-Neurociencias/neurodiagnoses/discussions]]**
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20	20
21	21	----
22	22
23		-== **1. Data Integration** ==
	23	+=== **1. Data Integration** ===
24	24
25		-=== **EBRAINS Medical Informatics Platform (MIP)**. ===
	25	+== Overview ==
26	26
	27	+
27	27	Neurodiagnoses integrates clinical data via the **EBRAINS Medical Informatics Platform (MIP)**. MIP federates decentralized clinical data, allowing Neurodiagnoses to securely access and process sensitive information for AI-based diagnostics.
28	28
29		-==== How It Works ====
	30	+== How It Works ==
30	30
31	31
32	32	1. (((
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49	49	* Access is granted only after signing a **Data Usage Agreement (DUA)**.
50	50	)))
51	51
52		-==== Implementation Steps ====
	53	+== Implementation Steps ==
53	53
54	54
55	55	1. Clone the repository.
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61	61
62	62	----
63	63
64		-=== Data Processing & Integration with Clinica.Run ===
	65	+= Data Processing & Integration with Clinica.Run =
65	65
	67	+
	68	+== Overview ==
	69	+
	70	+
66	66	Neurodiagnoses now supports **Clinica.Run**, an open-source neuroimaging platform designed for **multimodal data processing and reproducible neuroscience workflows**.
67	67
68		-==== How It Works ====
	73	+== How It Works ==
69	69
70	70
71	71	1. (((
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87	87	* Neuroimaging data remains **within the original storage environment**.
88	88	)))
89	89
90		-==== Implementation Steps ====
	95	+== Implementation Steps ==
91	91
92	92
93	93	1. Install **Clinica.Run** dependencies.
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139	139
140	140	----
141	141
142		-== **2. AI-Based Analysis** ==
	147	+=== **2. AI-Based Analysis** ===
143	143
144	144	==== **Machine Learning & Deep Learning Models** ====
145	145
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163	163
164	164	----
165	165
166		-== **3. Diagnostic Framework & Clinical Decision Support** ==
	171	+=== **3. Diagnostic Framework & Clinical Decision Support** ===
167	167
168	168	==== **Tridimensional Diagnostic Axes** ====
169	169
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184	184
185	185	----
186	186
187		-== **4. Computational Workflow & Annotation Pipelines** ==
	192	+=== **4. Computational Workflow & Annotation Pipelines** ===
188	188
189	189	==== **Data Processing Steps** ====
190	190
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209	209
210	210	----
211	211
212		-== **5. Validation & Real-World Testing** ==
	217	+=== **5. Validation & Real-World Testing** ===
213	213
214	214	==== **Prospective Clinical Study** ====
215	215
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224	224
225	225	----
226	226
227		-== **6. Collaborative Development** ==
	232	+=== **6. Collaborative Development** ===
228	228
229	229	The project is **open to contributions** from **researchers, clinicians, and developers**.
230	230
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239	239
240	240	----
241	241
242		-== **7. Tools and Technologies** ==
	247	+=== **7. Tools and Technologies** ===
243	243
244	244	==== **Programming Languages:** ====
245	245