Last modified by teodoramisan on 2026/02/13 10:11
From version 73.4
edited by teodoramisan
on 2026/02/13 09:16
Change comment: There is no comment for this version
To version 77.3
edited by teodoramisan
on 2026/02/13 10:06
Change comment: There is no comment for this version

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156 156  
157 157  [[image:timeseries-plotly.png||alt="view3.png" height="593" width="1100"]]
158 158  
159 -=== 3. Visualize posterior pairplot resulted from an inference workflow ===
160 160  
161 -This functionality is available for the SamplePosterior component. Right click on the component and select the Open Viewer functionality.
160 +=== 3. Visualize posterior samples with a pairplot (VBI inferenece) ===
162 162  
162 +This functionality is available for the **SamplePosterior** component. Right click on the component and select the **Open Viewer** functionality.
163 +
163 163  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.
164 164  
165 165  *Make sure the workflow has been executed so the viewer has data to load.
166 166  
168 +[[image:plot-posteriors.png||height="593" width="1100"]]
169 +
170 +
171 +=== 4. Visualize time series from VBI simulations ===
172 +
173 +This functionality is available for the **SimulationRunner** component. Right click on the component and select the **Open Viewer** functionality.
174 +
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 +
177 +*Make sure the workflow has been executed so the viewer has data to load.
178 +[[image:plot-timeseries-vbi.png||height="592" width="1100"]]
179 +
167 167  == ==
168 168  
169 169  == Workflow examples ==
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180 180  
181 181  === 2. Full VBI Inference workflow ===
182 182  
183 -Contains all VBI components required to run an inference workflow (e.g., inference configuration, model, simulator, train posterior, sample posterior).
196 +Contains all VBI components required to run an inference workflow, from prior sampling and simulation to posterior training and posterior sampling.
184 184  
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 +
185 185  [[image:vbi_workflow.png||height="590" width="1100"]]
186 186  
187 187  === 3. Configuring model parameters using the PhasePlaneWidget: ===
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204 204  
205 205  A workflow simulation which is run remotely, by submitting a job to an HPC site and getting back the results (TimeSeries object).
206 206  
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 +
207 207  {{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}}
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TVB Widgets