Changes for page Tools and services tutorials
Last modified by abonard on 2025/05/23 13:23
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... ... @@ -1,62 +1,62 @@ 1 1 This page is in development. Once ready it will be moved to a public location. 2 2 3 - ~== Arbor ==3 +== Arbor == 4 4 5 - ~*~[~[Arbor: A detailed single cell model>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/single_cell_detailed.html||rel="noopener noreferrer" target="_blank"]]6 - ~*~[~[Arbor: A detailed single cell recipe>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/single_cell_detailed_recipe.html||rel="noopener noreferrer" target="_blank"]]7 - ~*~[~[Arbor: A ring network>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/network_ring.html||rel="noopener noreferrer" target="_blank"]]8 - ~*~[~[Arbor: A simple dendrite>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/single_cell_cable.html||rel="noopener noreferrer" target="_blank"]]9 - ~*~[~[Arbor: A simple single cell model>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/single_cell_model.html||rel="noopener noreferrer" target="_blank"]]10 - ~*~[~[Arbor: A simple single cell recipe>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/single_cell_recipe.html||rel="noopener noreferrer" target="_blank"]]11 - ~*~[~[Arbor: A single cell model from the Allen Brain Atlas>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/single_cell_allen.html||rel="noopener noreferrer" target="_blank"]]12 - ~*~[~[Arbor: A single cell model from the BluePyOpt Cell Optimisation Library>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/single_cell_bluepyopt.html||rel="noopener noreferrer" target="_blank"]]13 - ~*~[~[Arbor: Distributed ring network (MPI)>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/network_ring_mpi.html||rel="noopener noreferrer" target="_blank"]]14 - ~*~[~[Arbor: Extracellular signals (LFPykit)>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/probe_lfpykit.html||rel="noopener noreferrer" target="_blank"]]15 - ~*~[~[Arbor: GPU and profiling>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/network_ring_gpu.html||rel="noopener noreferrer" target="_blank"]]16 - ~*~[~[Arbor: Spike Timing-dependent Plasticity Curve>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/calcium_stdp_curve.html||rel="noopener noreferrer" target="_blank"]]17 - ~*~[~[Arbor: Two cells connected via a gap junction>>https:~/~/docs.arbor-sim.org/en/stable/tutorial/network_two_cells_gap_junctions.html||rel="noopener noreferrer" target="_blank"]]5 +* [[Arbor: A detailed single cell model>>https://docs.arbor-sim.org/en/stable/tutorial/single_cell_detailed.html||rel="noopener noreferrer" target="_blank"]] 6 +* [[Arbor: A detailed single cell recipe>>https://docs.arbor-sim.org/en/stable/tutorial/single_cell_detailed_recipe.html||rel="noopener noreferrer" target="_blank"]] 7 +* [[Arbor: A ring network>>https://docs.arbor-sim.org/en/stable/tutorial/network_ring.html||rel="noopener noreferrer" target="_blank"]] 8 +* [[Arbor: A simple dendrite>>https://docs.arbor-sim.org/en/stable/tutorial/single_cell_cable.html||rel="noopener noreferrer" target="_blank"]] 9 +* [[Arbor: A simple single cell model>>https://docs.arbor-sim.org/en/stable/tutorial/single_cell_model.html||rel="noopener noreferrer" target="_blank"]] 10 +* [[Arbor: A simple single cell recipe>>https://docs.arbor-sim.org/en/stable/tutorial/single_cell_recipe.html||rel="noopener noreferrer" target="_blank"]] 11 +* [[Arbor: A single cell model from the Allen Brain Atlas>>https://docs.arbor-sim.org/en/stable/tutorial/single_cell_allen.html||rel="noopener noreferrer" target="_blank"]] 12 +* [[Arbor: A single cell model from the BluePyOpt Cell Optimisation Library>>https://docs.arbor-sim.org/en/stable/tutorial/single_cell_bluepyopt.html||rel="noopener noreferrer" target="_blank"]] 13 +* [[Arbor: Distributed ring network (MPI)>>https://docs.arbor-sim.org/en/stable/tutorial/network_ring_mpi.html||rel="noopener noreferrer" target="_blank"]] 14 +* [[Arbor: Extracellular signals (LFPykit)>>https://docs.arbor-sim.org/en/stable/tutorial/probe_lfpykit.html||rel="noopener noreferrer" target="_blank"]] 15 +* [[Arbor: GPU and profiling>>https://docs.arbor-sim.org/en/stable/tutorial/network_ring_gpu.html||rel="noopener noreferrer" target="_blank"]] 16 +* [[Arbor: Spike Timing-dependent Plasticity Curve>>https://docs.arbor-sim.org/en/stable/tutorial/calcium_stdp_curve.html||rel="noopener noreferrer" target="_blank"]] 17 +* [[Arbor: Two cells connected via a gap junction>>https://docs.arbor-sim.org/en/stable/tutorial/network_two_cells_gap_junctions.html||rel="noopener noreferrer" target="_blank"]] 18 18 19 - ~== Electrophysiology Analysis Toolkit ==19 +== Electrophysiology Analysis Toolkit == 20 20 21 - ~*~[~[ASSET: Analysis of Sequences of Synchronous Events in Massively Parallel Spike Trains>>https:~/~/elephant.readthedocs.io/en/latest/tutorials/asset.html||rel="noopener noreferrer" target="_blank"]]22 - ~*~[~[Gaussian Process Factor Analysis>>https:~/~/elephant.readthedocs.io/en/latest/tutorials/gpfa.html||rel="noopener noreferrer" target="_blank"]]23 - ~*~[~[Parallel>>https:~/~/elephant.readthedocs.io/en/latest/tutorials/parallel.html||rel="noopener noreferrer" target="_blank"]]24 - ~*~[~[Spike Pattern Detection and Evaluation (SPADE)>>https:~/~/elephant.readthedocs.io/en/latest/tutorials/spade.html||rel="noopener noreferrer" target="_blank"]]25 - ~*~[~[Statistics of spike trains>>https:~/~/elephant.readthedocs.io/en/latest/tutorials/statistics.html||rel="noopener noreferrer" target="_blank"]]26 - ~*~[~[The Unitary Events Analysis>>https:~/~/elephant.readthedocs.io/en/latest/tutorials/unitary_event_analysis.html||rel="noopener noreferrer" target="_blank"]]27 - ~*~[~[Time-domain Granger Causality>>https:~/~/elephant.readthedocs.io/en/latest/tutorials/granger_causality.html||rel="noopener noreferrer" target="_blank"]]21 +* [[ASSET: Analysis of Sequences of Synchronous Events in Massively Parallel Spike Trains>>https://elephant.readthedocs.io/en/latest/tutorials/asset.html||rel="noopener noreferrer" target="_blank"]] 22 +* [[Gaussian Process Factor Analysis>>https://elephant.readthedocs.io/en/latest/tutorials/gpfa.html||rel="noopener noreferrer" target="_blank"]] 23 +* [[Parallel>>https://elephant.readthedocs.io/en/latest/tutorials/parallel.html||rel="noopener noreferrer" target="_blank"]] 24 +* [[Spike Pattern Detection and Evaluation (SPADE)>>https://elephant.readthedocs.io/en/latest/tutorials/spade.html||rel="noopener noreferrer" target="_blank"]] 25 +* [[Statistics of spike trains>>https://elephant.readthedocs.io/en/latest/tutorials/statistics.html||rel="noopener noreferrer" target="_blank"]] 26 +* [[The Unitary Events Analysis>>https://elephant.readthedocs.io/en/latest/tutorials/unitary_event_analysis.html||rel="noopener noreferrer" target="_blank"]] 27 +* [[Time-domain Granger Causality>>https://elephant.readthedocs.io/en/latest/tutorials/granger_causality.html||rel="noopener noreferrer" target="_blank"]] 28 28 29 - ~== PyNN ==29 +== PyNN == 30 30 31 - ~*~[~[Building and simulating a simple model>>https:~/~/youtu.be/zBLNfJiEvRc||rel="noopener noreferrer" target="_blank"]]32 - ~*~[~[Installing PyNN on a Linux system>>https:~/~/youtu.be/BZB7xKUK8Vc||rel="noopener noreferrer" target="_blank"]]31 +* [[Building and simulating a simple model>>https://youtu.be/zBLNfJiEvRc||rel="noopener noreferrer" target="_blank"]] 32 +* [[Installing PyNN on a Linux system>>https://youtu.be/BZB7xKUK8Vc||rel="noopener noreferrer" target="_blank"]] 33 33 34 - ~== VoluBA ==34 +== VoluBA == 35 35 36 - ~*~[~[Day 2 - 02. VoluBA (Sebastian Bludau)>>https:~/~/youtu.be/l_7ILe6_2Cs||rel="noopener noreferrer" target="_blank"]]36 +* [[Day 2 - 02. VoluBA (Sebastian Bludau)>>https://youtu.be/l_7ILe6_2Cs||rel="noopener noreferrer" target="_blank"]] 37 37 38 - ~== The Virtual Brain ==38 +== The Virtual Brain == 39 39 40 - ~*~[~[TVB: Brain stimulation in The Virtual Brain>>https:~/~/youtu.be/mskxBYKoeq0||rel="noopener noreferrer" target="_blank"]]41 - ~*~[~[TVB: Building Your Own Brain Network Model>>https:~/~/docs.thevirtualbrain.org/tutorials/tutorial_1_BuildingYourOwnBrainNetworkModel.html#tutorial-1-buildingyourownbrainnetworkmodel||rel="noopener noreferrer" target="_blank"]]42 - ~*~[~[TVB: Clinical Applications - Stroke Recovery & Dementia>>https:~/~/youtu.be/ZA2UuHZiPnM||rel="noopener noreferrer" target="_blank"]]43 - ~*~[~[TVB: Evoked Responses in the Visual Cortex>>https:~/~/nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s4_EvokedResponsesInTheVisualCortex.ipynb||rel="noopener noreferrer" target="_blank"]]44 - ~*~[~[TVB: Exploring a model>>https:~/~/nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s3_exploring_a_model.ipynb||rel="noopener noreferrer" target="_blank"]]45 - ~*~[~[TVB: Getting Started>>https:~/~/docs.thevirtualbrain.org/tutorials/tutorial_0_GettingStarted.html#tutorial-0-gettingstarted||rel="noopener noreferrer" target="_blank"]]46 - ~*~[~[TVB: Hands-On: Modeling stroke brain>>https:~/~/youtu.be/BDj9MLpt0io||rel="noopener noreferrer" target="_blank"]]47 - ~*~[~[TVB: Human Brain Project (HBP) TVB-NEST co-simulation>>https:~/~/youtu.be/dUuQe_SI5lE||rel="noopener noreferrer" target="_blank"]]48 - ~*~[~[TVB: Import Virtual Brain ready data into TVB and create a brain model>>https:~/~/youtu.be/OEOCFyiJgBM||rel="noopener noreferrer" target="_blank"]]49 - ~*~[~[TVB: Integrated workflows: Image processing pipeline>>https:~/~/youtu.be/uUkq0K-xM0Q||rel="noopener noreferrer" target="_blank"]]50 - ~*~[~[TVB: Modeling brain dynamics in brain tumor patients using The Virtual Brain>>https:~/~/youtu.be/t9xyoHxTAmQ||rel="noopener noreferrer" target="_blank"]]51 - ~*~[~[TVB: Modeling Epilepsy>>https:~/~/nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s6_ModelingEpilepsy.ipynb||rel="noopener noreferrer" target="_blank"]]52 - ~*~[~[TVB: Modelling Epilepsy with The Virtual Brain>>https:~/~/youtu.be/YrSxnMo6Lr8||rel="noopener noreferrer" target="_blank"]]53 - ~*~[~[TVB: My first simulation with The Virtual Brain>>https:~/~/youtu.be/326iA14UVzY||rel="noopener noreferrer" target="_blank"]]54 - ~*~[~[TVB: Population Models in The Virtual Brain (TVB) and the Phase Plane>>https:~/~/youtu.be/Zo0HGwLHN3E||rel="noopener noreferrer" target="_blank"]]55 - ~*~[~[TVB: Region simulation tutorial>>https:~/~/nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s1_region_simulation.ipynb||rel="noopener noreferrer" target="_blank"]]56 - ~*~[~[TVB: Resting State Networks>>https:~/~/nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s5_ModelingRestingStateNetworks.ipynb||rel="noopener noreferrer" target="_blank"]]57 - ~*~[~[TVB: Simulating The Virtual Mouse Brain (TVMB)>>https:~/~/youtu.be/gxhJku8KRYY||rel="noopener noreferrer" target="_blank"]]58 - ~*~[~[TVB: Simulating The Virtual Mouse Brain (TVMB) (Copy)>>https:~/~/youtu.be/gxhJku8KRYY||rel="noopener noreferrer" target="_blank"]]59 - ~*~[~[TVB: Surface simulation tutorial>>https:~/~/nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s2_surface_simulation.ipynb||rel="noopener noreferrer" target="_blank"]]60 - ~*~[~[TVB: Surface-based simulations and deep brain stimulations>>https:~/~/youtu.be/ZXLrvHc24xE||rel="noopener noreferrer" target="_blank"]]61 - ~*~[~[TVB: The Bayesian Virtual Epileptic Patient (BVEP)>>https:~/~/youtu.be/4XghviA_1Uk||rel="noopener noreferrer" target="_blank"]]62 - ~*~[~[TVB: TVB to NEST multi-scale simulation>>https:~/~/youtu.be/PppyGzWUxuE||rel="noopener noreferrer" target="_blank"]]40 +* [[TVB: Brain stimulation in The Virtual Brain>>https://youtu.be/mskxBYKoeq0||rel="noopener noreferrer" target="_blank"]] 41 +* [[TVB: Building Your Own Brain Network Model>>https://docs.thevirtualbrain.org/tutorials/tutorial_1_BuildingYourOwnBrainNetworkModel.html#tutorial-1-buildingyourownbrainnetworkmodel||rel="noopener noreferrer" target="_blank"]] 42 +* [[TVB: Clinical Applications - Stroke Recovery & Dementia>>https://youtu.be/ZA2UuHZiPnM||rel="noopener noreferrer" target="_blank"]] 43 +* [[TVB: Evoked Responses in the Visual Cortex>>https://nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s4_EvokedResponsesInTheVisualCortex.ipynb||rel="noopener noreferrer" target="_blank"]] 44 +* [[TVB: Exploring a model>>https://nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s3_exploring_a_model.ipynb||rel="noopener noreferrer" target="_blank"]] 45 +* [[TVB: Getting Started>>https://docs.thevirtualbrain.org/tutorials/tutorial_0_GettingStarted.html#tutorial-0-gettingstarted||rel="noopener noreferrer" target="_blank"]] 46 +* [[TVB: Hands-On: Modeling stroke brain>>https://youtu.be/BDj9MLpt0io||rel="noopener noreferrer" target="_blank"]] 47 +* [[TVB: Human Brain Project (HBP) TVB-NEST co-simulation>>https://youtu.be/dUuQe_SI5lE||rel="noopener noreferrer" target="_blank"]] 48 +* [[TVB: Import Virtual Brain ready data into TVB and create a brain model>>https://youtu.be/OEOCFyiJgBM||rel="noopener noreferrer" target="_blank"]] 49 +* [[TVB: Integrated workflows: Image processing pipeline>>https://youtu.be/uUkq0K-xM0Q||rel="noopener noreferrer" target="_blank"]] 50 +* [[TVB: Modeling brain dynamics in brain tumor patients using The Virtual Brain>>https://youtu.be/t9xyoHxTAmQ||rel="noopener noreferrer" target="_blank"]] 51 +* [[TVB: Modeling Epilepsy>>https://nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s6_ModelingEpilepsy.ipynb||rel="noopener noreferrer" target="_blank"]] 52 +* [[TVB: Modelling Epilepsy with The Virtual Brain>>https://youtu.be/YrSxnMo6Lr8||rel="noopener noreferrer" target="_blank"]] 53 +* [[TVB: My first simulation with The Virtual Brain>>https://youtu.be/326iA14UVzY||rel="noopener noreferrer" target="_blank"]] 54 +* [[TVB: Population Models in The Virtual Brain (TVB) and the Phase Plane>>https://youtu.be/Zo0HGwLHN3E||rel="noopener noreferrer" target="_blank"]] 55 +* [[TVB: Region simulation tutorial>>https://nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s1_region_simulation.ipynb||rel="noopener noreferrer" target="_blank"]] 56 +* [[TVB: Resting State Networks>>https://nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s5_ModelingRestingStateNetworks.ipynb||rel="noopener noreferrer" target="_blank"]] 57 +* [[TVB: Simulating The Virtual Mouse Brain (TVMB)>>https://youtu.be/gxhJku8KRYY||rel="noopener noreferrer" target="_blank"]] 58 +* [[TVB: Simulating The Virtual Mouse Brain (TVMB) (Copy)>>https://youtu.be/gxhJku8KRYY||rel="noopener noreferrer" target="_blank"]] 59 +* [[TVB: Surface simulation tutorial>>https://nbviewer.thevirtualbrain.org/url/docs.thevirtualbrain.org/tutorials/tutorial_s2_surface_simulation.ipynb||rel="noopener noreferrer" target="_blank"]] 60 +* [[TVB: Surface-based simulations and deep brain stimulations>>https://youtu.be/ZXLrvHc24xE||rel="noopener noreferrer" target="_blank"]] 61 +* [[TVB: The Bayesian Virtual Epileptic Patient (BVEP)>>https://youtu.be/4XghviA_1Uk||rel="noopener noreferrer" target="_blank"]] 62 +* [[TVB: TVB to NEST multi-scale simulation>>https://youtu.be/PppyGzWUxuE||rel="noopener noreferrer" target="_blank"]]