diff --git a/docs/mkdocs.yml b/docs/mkdocs.yml index 588819094..df72f30f6 100644 --- a/docs/mkdocs.yml +++ b/docs/mkdocs.yml @@ -18,7 +18,7 @@ nav: - Learning summary statistics: tutorial/05_embedding_net.md - Handling invalid simulations: tutorial/08_restriction_estimator.md - Crafting summary statistics: tutorial/10_crafting_summary_statistics.md - - SBI with trial-based (mixed) data: tutorial/14_multi-trial-data-and-mixed-data-types.md + - SBI with trial-based data: tutorial/14_iid_data_and_permutation_invariant_embeddings.md - Diagnostics: - Posterior predictive checks: tutorial/12_diagnostics_posterior_predictive_check.md - Simulation-based calibration: tutorial/13_diagnostics_simulation_based_calibration.md @@ -28,6 +28,7 @@ nav: - Posterior sensitivity analysis: tutorial/09_sensitivity_analysis.md - Examples: - Hodgkin-Huxley example: examples/00_HH_simulator.md + - Decision making model: examples/01_decision_making_model.md - Contributing: - Guide: contribute.md - Code of Conduct: code_of_conduct.md diff --git a/tutorials/17_SBI_for_models_of_decision_making.ipynb b/examples/01_decision_making_model.ipynb similarity index 100% rename from tutorials/17_SBI_for_models_of_decision_making.ipynb rename to examples/01_decision_making_model.ipynb diff --git a/tutorials/15_mcmc_diagnostics_with_arviz.ipynb b/tutorials/15_mcmc_diagnostics_with_arviz.ipynb index 2c848ecca..700f4a0c7 100644 --- a/tutorials/15_mcmc_diagnostics_with_arviz.ipynb +++ b/tutorials/15_mcmc_diagnostics_with_arviz.ipynb @@ -10,8 +10,8 @@ "\n", "Outline:\n", "\n", - "1) Train MNLE to approximate the likelihood underlying the simulator\n", - "2) Run MCMC using `pyro` MCMC samplers via `sbi` interface\n", + "1) Train MNLE to approximate the likelihood underlying the simulator \n", + "2) Run MCMC using `pyro` MCMC samplers via `sbi` interface \n", "3) Use `arviz` to visualize the posterior, predictive distributions and MCMC diagnostics. " ] }, @@ -67,7 +67,7 @@ "source": [ "## Train MNLE to approximate the likelihood\n", "\n", - "For this tutorial, we will use a simple simulator with two parameters. For details see the [example on the decision making model](https://www.mackelab.org/sbi/tutorial/17_SBI_for_models_of_decision_making.ipynb/). \n", + "For this tutorial, we will use a simple simulator with two parameters. For details see the [example on the decision making model](https://sbi-dev.github.io/sbi/examples/01_decision_making_model.md/). \n", "\n", "Here, we pass `mcmc_method=\"nuts\"` in order to use the underlying [`pyro` No-U-turn sampler](https://docs.pyro.ai/en/1.8.1/mcmc.html#nuts), but it would work as well with other samplers (e.g. \"slice_np_vectorized\", \"hmc\"). \n", "\n",