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Daniel Incicau
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Change synaptic parameters in accordance with (Naud and Sprekeler 2018)
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6 files changed

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-20
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6 files changed

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‎notebooks/layer5_CC_CS_connection.ipynb‎

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -68,8 +68,8 @@
6868
"tau_D = 7*ms # PYR neuron - dendritic membrane time constant\n",
6969
"tau_SST = 20*ms # SST neuron membrane time constant\n",
7070
"tau_PV = 10*ms # PV neuron membrane time constant\n",
71-
"tau_E = 5*ms # Excitatory synaptic time constant\n",
72-
"tau_I = 10*ms # Inhibitory synaptic time constant\n",
71+
"tau_E = 1*ms # Excitatory synaptic time constant\n",
72+
"tau_I = 5*ms # Inhibitory synaptic time constant\n",
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"\n",
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"C_S = 370*pF # PYR neuron - soma membrane capacitance\n",
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"C_D = 170*pF # PYR neuron - dendritic membrane capacitance\n",
@@ -78,7 +78,7 @@
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"\n",
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"E_l = -70*mV # leak reversal potential\n",
8080
"E_e = 0*mV # Excitatory synaptic reversal potential\n",
81-
"E_i = -80*mV # Inhibitory synaptic reversal potential\n",
81+
"E_i = -70*mV # Inhibitory synaptic reversal potential\n",
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"\n",
8383
"V_t = -50*mV # spiking threashold\n",
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"\n",

‎notebooks/layer5_SST_Soma_selectivity.ipynb‎

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -69,8 +69,8 @@
6969
"tau_D = 7*ms # PYR neuron - dendritic membrane time constant\n",
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"tau_SST = 20*ms # SST neuron membrane time constant\n",
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"tau_PV = 10*ms # PV neuron membrane time constant\n",
72-
"tau_E = 5*ms # Excitatory synaptic time constant\n",
73-
"tau_I = 10*ms # Inhibitory synaptic time constant\n",
72+
"tau_E = 1*ms # Excitatory synaptic time constant\n",
73+
"tau_I = 5*ms # Inhibitory synaptic time constant\n",
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"\n",
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"C_S = 370*pF # PYR neuron - soma membrane capacitance\n",
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"C_D = 170*pF # PYR neuron - dendritic membrane capacitance\n",
@@ -79,7 +79,7 @@
7979
"\n",
8080
"E_l = -70*mV # leak reversal potential\n",
8181
"E_e = 0*mV # Excitatory synaptic reversal potential\n",
82-
"E_i = -80*mV # Inhibitory synaptic reversal potential\n",
82+
"E_i = -70*mV # Inhibitory synaptic reversal potential\n",
8383
"\n",
8484
"V_t = -50*mV # spiking threashold\n",
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"\n",

‎notebooks/layer5_sandbox.ipynb‎

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -68,8 +68,8 @@
6868
"tau_D = 7*ms # PYR neuron - dendritic membrane time constant\n",
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"tau_SST = 20*ms # SST neuron membrane time constant\n",
7070
"tau_PV = 10*ms # PV neuron membrane time constant\n",
71-
"tau_E = 5*ms # Excitatory synaptic time constant\n",
72-
"tau_I = 10*ms # Inhibitory synaptic time constant\n",
71+
"tau_E = 1*ms # Excitatory synaptic time constant\n",
72+
"tau_I = 5*ms # Inhibitory synaptic time constant\n",
7373
"\n",
7474
"C_S = 370*pF # PYR neuron - soma membrane capacitance\n",
7575
"C_D = 170*pF # PYR neuron - dendritic membrane capacitance\n",
@@ -78,7 +78,7 @@
7878
" \n",
7979
"E_l = -70*mV # leak reversal potential\n",
8080
"E_e = 0*mV # Excitatory synaptic reversal potential\n",
81-
"E_i = -80*mV # Inhibitory synaptic reversal potential\n",
81+
"E_i = -70*mV # Inhibitory synaptic reversal potential\n",
8282
"\n",
8383
"V_t = -50*mV # spiking threashold\n",
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"\n",

‎notebooks/test_different_inputs.ipynb‎

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -44,8 +44,8 @@
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"tau_D = 7*ms # PYR neuron - dendritic membrane time constant\n",
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"tau_SST = 20*ms # SST neuron membrane time constant\n",
4646
"tau_PV = 10*ms # PV neuron membrane time constant\n",
47-
"tau_E = 5*ms # Excitatory synaptic time constant\n",
48-
"tau_I = 10*ms # Inhibitory synaptic time constant\n",
47+
"tau_E = 1*ms # Excitatory synaptic time constant\n",
48+
"tau_I = 5*ms # Inhibitory synaptic time constant\n",
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"\n",
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"C_S = 370*pF # PYR neuron - soma membrane capacitance\n",
5151
"C_D = 170*pF # PYR neuron - dendritic membrane capacitance\n",
@@ -54,7 +54,7 @@
5454
"\n",
5555
"E_l = -70*mV # leak reversal potential\n",
5656
"E_e = 0*mV # Excitatory synaptic reversal potential\n",
57-
"E_i = -80*mV # Inhibitory synaptic reversal potential\n",
57+
"E_i = -70*mV # Inhibitory synaptic reversal potential\n",
5858
"\n",
5959
"V_t = -50*mV # spiking threashold\n",
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"\n",

‎notebooks/test_single_neurons.ipynb‎

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -41,8 +41,8 @@
4141
"tau_D = 7*ms # PYR neuron - dendritic membrane time constant\n",
4242
"tau_SST = 20*ms # SST neuron membrane time constant\n",
4343
"tau_PV = 10*ms # PV neuron membrane time constant\n",
44-
"tau_E = 5*ms # Excitatory synaptic time constant\n",
45-
"tau_I = 10*ms # Inhibitory synaptic time constant\n",
44+
"tau_E = 1*ms # Excitatory synaptic time constant\n",
45+
"tau_I = 5*ms # Inhibitory synaptic time constant\n",
4646
"\n",
4747
"C_S = 370*pF # PYR neuron - soma membrane capacitance\n",
4848
"C_D = 170*pF # PYR neuron - dendritic membrane capacitance\n",
@@ -51,7 +51,7 @@
5151
"\n",
5252
"E_l = -70*mV # leak reversal potential\n",
5353
"E_e = 0*mV # Excitatory synaptic reversal potential\n",
54-
"E_i = -80*mV # Inhibitory synaptic reversal potential\n",
54+
"E_i = -70*mV # Inhibitory synaptic reversal potential\n",
5555
"\n",
5656
"V_t = -50*mV # spiking threashold\n",
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"\n",

‎parameters.py‎

Lines changed: 5 additions & 5 deletions
Original file line numberDiff line numberDiff line change
@@ -7,7 +7,7 @@
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88
default = {
99
### General parameters
10-
"duration": 5 * second, # Total simulation time
10+
"duration": 10 * second, # Total simulation time
1111
"sim_dt": 0.1 * ms, # Integrator/sampling step
1212

1313
"N_sst": N_SST, # Number of SST neurons (inhibitory)
@@ -20,8 +20,8 @@
2020
"tau_D": 7 * ms, # PYR neuron - dendritic membrane time constant
2121
"tau_SST": 20 * ms, # SST neuron membrane time constant
2222
"tau_PV": 10 * ms, # PV neuron membrane time constant
23-
"tau_E": 5 * ms, # Excitatory synaptic time constant
24-
"tau_I": 10 * ms, # Inhibitory synaptic time constant
23+
"tau_E": 1 * ms, # Excitatory synaptic time constant
24+
"tau_I": 5 * ms, # Inhibitory synaptic time constant
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2626
"C_S": 370 * pF, # PYR neuron - soma membrane capacitance
2727
"C_D": 170 * pF, # PYR neuron - dendritic membrane capacitance
@@ -30,7 +30,7 @@
3030

3131
"E_l": -70 * mV, # leak reversal potential
3232
"E_e": 0 * mV, # Excitatory synaptic reversal potential
33-
"E_i": -80 * mV, # Inhibitory synaptic reversal potential
33+
"E_i": -70 * mV, # Inhibitory synaptic reversal potential
3434

3535
"V_t": -50 * mV, # spiking threshold
3636

@@ -114,7 +114,7 @@
114114

115115
### Params for simulation analysis
116116
"no_bins_firing_rates": 10, # Number of bins for firing rates historgram
117-
"no_bins_isi": 10, # Number of bins for interspike intervals historgram
117+
"no_bins_isi": 16, # Number of bins for interspike intervals historgram
118118

119119
"plot_connectivity_graph": True, # If true, will also plot synapse connectivity graph for each simulation
120120
"recompute_equilibrium": False, # If true, will try and recompute equilibirum time, if not will use `default_equilibrium_time`

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