Last modified by teodoramisan on 2026/02/13 10:11
From version 79.1
edited by teodoramisan
on 2026/02/13 10:07
Change comment: There is no comment for this version
To version 74.1
edited by teodoramisan
on 2026/02/13 09:19
Change comment: There is no comment for this version

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157 157  [[image:timeseries-plotly.png||alt="view3.png" height="593" width="1100"]]
158 158  
159 159  
160 -=== 3. Visualize posterior samples with a pairplot (VBI inferenece) ===
160 +=== 3. Visualize posterior pairplot resulted from an inference workflow ===
161 161  
162 -This functionality is available for the **SamplePosterior** component. Right click on the component and select the **Open Viewer** functionality.
162 +This functionality is available for the SamplePosterior component. Right click on the component and select the Open Viewer functionality.
163 163  
164 164  This opens a new JupyterLab tab with an editable notebook. After following the instructions in the notebook, you will generate a pairplot of the posterior samples, showing the distribution of each parameter (uncertainty) and the relationships between parameters.
165 165  
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168 168  [[image:plot-posteriors.png||height="593" width="1100"]]
169 169  
170 170  
171 -=== 4. Visualize time series from VBI simulations ===
171 +=== 4. Visualize time series resulted from VBI simulations ===
172 172  
173 -This functionality is available for the **SimulationRunner** component. Right click on the component and select the **Open Viewer** functionality.
173 +This functionality is available for the SimulationRunner component. Right click on the component and select the Open Viewer functionality.
174 174  
175 175  This opens a new JupyterLab tab with an editable notebook. After following the instructions in the notebook, you will see a simple time-series plot of the simulated model signal over time.
176 176  
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193 193  
194 194  === 2. Full VBI Inference workflow ===
195 195  
196 -Contains all VBI components required to run an inference workflow, from __prior sampling__ and __simulation__ to __posterior training__ and __posterior sampling__.
196 +Contains all VBI components required to run an inference workflow (e.g., inference configuration, model, simulator, train posterior, sample posterior).
197 197  
198 -The workflow starts with **ConfigInference**, which builds the configuration inputs needed by the workflow. It samples parameter values from the prior distribution to generate theta and prepares the feature-extraction configuration (cfg) used later in the pipeline.
199 -
200 -Next, **SimulationRunner** executes the selected **VBI model** for a batch of parameter samples (theta) using the chosen backend (//cpp//, //cupy// or //numba//). It selects the requested output signal from the model result and extracts the summary features defined in cfg, producing the feature matrix used for training.
201 -
202 -The resulting features and parameter samples are then passed to **TrainPosterior**, which standardizes the feature matrix with //StandardScaler //and trains a posterior distribution using an SBI method (for example //SNPE//, //SNLE//, or //SNRE//). In the last step, **SamplePosterior** draws parameter samples from the trained posterior distribution, conditioned on the selected observed feature vector.
203 -
204 204  [[image:vbi_workflow.png||height="590" width="1100"]]
205 205  
206 206  === 3. Configuring model parameters using the PhasePlaneWidget: ===
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223 223  
224 224  A workflow simulation which is run remotely, by submitting a job to an HPC site and getting back the results (TimeSeries object).
225 225  
226 -=== 6. Parallel simulations workflow ===
227 -
228 -This example demonstrates **Parameter Space Exploration** (PSE) by running multiple TVB simulations in parallel for different parameter combinations.
229 -
230 -The workflow uses two nested ForEach components to iterate over coupling and conduction speed sets of values. For each (coupling, conduction_speed) pair, a simulation run is executed with the help of the RunParallelProcess component, which runs the workflow body in separate worker processes (using multiprocessing + dill).
231 -
232 -[[image:parallel-simulations.png||height="590" width="1100"]]
233 -
234 -
235 235  {{html}}<iframe width="1280" height="720" src="https://www.youtube.com/embed/M6rZClFgRrM" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" allowfullscreen></iframe>{{/html}}
236 236  
parallel-simulations.png
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TVB Widgets