PyNEST examples

Basic network examples

• One neuron example
• One neuron with noise
• Two neuron example
• Balanced neuron example
• Recording examples
• Spike synchronization through subthreshold oscillation
• Campbell & Siegert approximation example
• Example using Hodgkin-Huxley neuron
• Numerical phase-plane analysis of the Hodgkin-Huxley neuron
• Population of GIF neuron model with oscillatory behavior
• Population rate model of generalized integrate-and-fire neurons
• Testing the adapting exponential integrate and fire model in NEST (Brette and Gerstner Fig 2C)
• Testing the adapting exponential integrate and fire model in NEST (Brette and Gerstner Fig 3D)
• Multi-compartment neuron example
• Comparing precise and grid-based neuron models

Synapse examples

• Structural Plasticity example
• Gap Junctions: Two neuron example
• Gap Junctions: Inhibitory network example
• Example of the tsodyks2_synapse in NEST
• Example for the quantal_stp_synapse
• Clopath Rule: Spike pairing experiment
• Clopath Rule: Bidirectional connections
• Tsodyks depressing example
• Tsodyks facilitating example
• Weight adaptation according to the Urbanczik-Senn plasticity

Rate neuron examples

• Network of linear rate neurons
• Rate neuron decision making

Random balanced network examples

• Random balanced network (alpha synapses) connected with NEST
• Random balanced network (delta synapses)
• Mean-field theory for random balanced network
• Random balanced network (exp synapses, multiple time constants)
• Use evolution strategies to find parameters for a random balanced network (alpha synapses)

Device usage examples

• IAF neuron example
• Repeated Stimulation
• Example of multimeter recording to file
• Sensitivity to perturbation
• Plot weight matrices example
• IF curve example
• Pulse packet example
• Correlospinmatrix detector example
• Sinusoidal poisson generator example
• Sinusoidal gamma generator example
• Auto- and crosscorrelation functions for spike trains
• Intrinsic currents spiking
• Intrinsic currents subthreshold

Connection set algebra examples

• Using CSA for connection setup
• Using CSA with spatial populations

HPC benchmark

• Random balanced network HPC benchmark

Cortical microcircuit example

• Cortical microcircuit model (based on Potjans and Diesmann, 2014)

Spatially-stuctured networks examples

• Create two populations of pyramidal cells and two populations of interneurons
• Connect two populations with convergent projection and rectangular mask, visualize connection from target perspective
• Connect two populations with convergent projection and rectangular mask, visualize connections from source perspective
• Connect with circular mask, flat probability using 2 populations of iaf_psc_alpha neurons
• NEST spatial example
• Create a 4x3 grid with one pyramidal cell and one interneuron at each position
• Create two populations on a 30x30 grid and connect them using a Gaussian probabilistic kernel
• Create a population of iaf_psc_alpha neurons on a 4x3 grid
• Create 12 freely placed iaf_psc_alpha neurons
• Create three populations of iaf_psc_alpha neurons on a 4x3 grid, each with different center
• A spatial network in 3D
• A spatial network in 3D with exponential connection probabilities
• A spatial network in 3D with Gaussian connection probabilities