doc hierarchy update

docs/advanced_tutorials.rst

@@ -3,13 +3,52 @@ Advanced Tutorials
 
 This section contains tutorials that illustrate more advanced features of BrainPy.
 
+Advanced Math
+-------------
 
 .. toctree::
-   :maxdepth: 2
+   :maxdepth: 1
+
+   tutorial_advanced/compilation.ipynb
+   tutorial_advanced/differentiation.ipynb
+
+
+Interoperation
+--------------
+
+.. toctree::
+   :maxdepth: 1
+
+   tutorial_advanced/integrate_flax_into_brainpy.ipynb
+   tutorial_advanced/integrate_bp_lif_into_flax.ipynb
+   tutorial_advanced/integrate_bp_convlstm_into_flax.ipynb
+
+
+Brain Dynamics Dedicated Operators
+----------------------------------
+
+.. toctree::
+   :maxdepth: 1
+
+   tutorial_advanced/operator_custom_with_numba.ipynb
+   tutorial_advanced/operator_custom_with_taichi.ipynb
+
+
+Developer Guides
+----------------
+
+.. toctree::
+   :maxdepth: 1
+
+   tutorial_advanced/contributing.md
+
+
+Others
+------
+
+.. toctree::
+   :maxdepth: 1
+
+   tutorial_advanced/advanced_lowdim_analysis.ipynb
 
-   tutorial_advanced/1_advanced_math.rst
-   tutorial_advanced/2_interoperation.rst
-   tutorial_advanced/3_dedicated_operators.rst
-   tutorial_advanced/4_developer_guides.rst
-   tutorial_advanced/5_others.rst
 

docs/toolboxes.rst

@@ -1,7 +1,16 @@
 BDP Toolboxes
 ==================
+
+
+
 This section contains detailed toolboxes BrainPy uses for brain dynamics modeling.
 
+
+
+Differential Equations
+-----------------------
+
+
 .. toctree::
    :maxdepth: 1
 
@@ -10,11 +19,34 @@ This section contains detailed toolboxes BrainPy uses for brain dynamics modelin
    tutorial_toolbox/fde_numerical_solvers
    tutorial_toolbox/dde_numerical_solvers
    tutorial_toolbox/joint_equations
+
+
+Toolbox for Modeling
+-------------------
+
+.. toctree::
+   :maxdepth: 1
+
    tutorial_toolbox/synaptic_connections
    tutorial_toolbox/synaptic_weights
+   tutorial_toolbox/inputs
+
+
+Toolbox for Training
+--------------------
+
+.. toctree::
+   :maxdepth: 1
+
    tutorial_toolbox/optimizers
-   tutorial_toolbox/state_saving_and_loading.ipynb
-   tutorial_toolbox/state_resetting.ipynb
    tutorial_toolbox/surrogate_gradient
-   tutorial_toolbox/inputs
 
+
+State Resetting, Saving and Loading
+-----------------------------------
+
+.. toctree::
+   :maxdepth: 1
+
+   tutorial_toolbox/state_saving_and_loading.ipynb
+   tutorial_toolbox/state_resetting.ipynb

docs/tutorials.rst

@@ -3,11 +3,76 @@ BDP Tutorials
 
 This section contains tutorials on how to use BrainPy to accomplish model building, simulation, training, and analysis.
 
+
+Math Foundation
+---------------
+
+.. toctree::
+   :maxdepth: 1
+
+   tutorial_math/variables
+   tutorial_math/control_flows
+   tutorial_math/Numpy_like_Operations.ipynb
+   tutorial_math/Dedicated_Operators.ipynb
+   tutorial_math/einops_in_brainpy.ipynb
+
+
+Model Building with Existing Modules
+------------------------------------
+
+.. toctree::
+   :maxdepth: 1
+
+   tutorial_building/overview_of_dynamic_model
+   tutorial_building/build_conductance_neurons_v2.ipynb
+   tutorial_building/phenon_synapse_models.ipynb
+   tutorial_building/kinetic_synapse_models.ipynb
+   tutorial_building/build_network_models
+
+
+Model Building by Customizing New Modules
+-----------------------------------------
+
+.. toctree::
+   :maxdepth: 1
+
+   tutorial_building/customize_neuron_models
+   tutorial_building/customize_synapse_models
+   tutorial_building/how_to_customze_a_synapse.ipynb
+
+
+Model Simulation
+----------------
+
+.. toctree::
+   :maxdepth: 1
+
+   tutorial_simulation/simulation_dsrunner.ipynb
+   tutorial_simulation/parallel_for_parameter_exploration.ipynb
+   tutorial_simulation/monitor_per_multiple_steps.ipynb
+
+
+Model Training
+--------------
+
+This tutorial shows how to train a dynamical system from data or task.
+
+.. toctree::
+   :maxdepth: 1
+
+   tutorial_training/build_training_models.ipynb
+   tutorial_training/offline_training.ipynb
+   tutorial_training/online_training.ipynb
+   tutorial_training/bp_training.ipynb
+   tutorial_training/esn_introduction.ipynb
+
+
+Model Analysis
+--------------
+
 .. toctree::
-   :maxdepth: 2
+   :maxdepth: 1
 
-   tutorial_math/index
-   tutorial_building/index
-   tutorial_simulation/index
-   tutorial_training/index
-   tutorial_analysis/index
+   tutorial_analysis/lowdim_analysis
+   tutorial_analysis/highdim_analysis
+   tutorial_analysis/decision_making_model