# define cell
cell = CellRxDCaSpineCellCellCell(name="cell")
cell.load_morpho(filepath='morphologies/swc/my.swc',
seg_per_L_um=1,
add_const_segs=11)
cell.add_spines(spine_number=10,
head_nseg=10,
neck_nseg=10,
sections='dend')
cell.add_rxd(rxd_obj=RxDCa(), sec_names="soma dend head neck")
cell.add_rxd(rxd_obj=RxDpmca(), sec_names="soma dend head neck")
cell.add_rxd(rxd_obj=RxDncx(), sec_names="head neck")
# plots
ps_cai = get_shape_plot(variable='cai', min_val=0, max_val=0.01)
ps_v = get_shape_plot(variable='v', min_val=-70, max_val=40)
rec = Record(cell.filter_secs("head[0]"), locs=1, variables='ica cai')
# init and run
h.finitialize(-65 * mV)
# make_stim(cell)
make_head_ca2_concentration(cell)
h.cvode.re_init()
run_sim(runtime=100,
stepsize=0.1,
init_sleep=3,
delay_between_steps=50,
plot_shapes=[ps_cai, ps_v])
rec.plot()
if __name__ == '__main__':
h.load_file('stdrun.hoc')
# define cell
cell = EbnerRxDCaSpineCell(name="cell")
cell.load_morpho(filepath='morphologies/swc/my.swc', seg_per_L_um=1, add_const_segs=11)
cell.add_spines(spine_number=10, head_nseg=10, neck_nseg=10, sections='dend')
cell.add_soma_mechanisms()
cell.add_apical_mechanisms(sections='dend head neck')
cell.add_4p_ach_da_synapse(sec_names="head", loc=1) # add synapse at the top of each spine's head
# Create stims
s1 = NetStimCell("stim_cell")
stim1 = s1.add_netstim("stim1", start=WARMUP + 1)
stim2 = s1.add_netstim("stim2", start=WARMUP + 100)
# stimulation
cell.add_netcons(source=stim1, weight=WEIGHT, delay=1, pp_type_name="SynACh", sec_names="head[0][0]")
cell.add_netcons(source=stim2, weight=WEIGHT, delay=1, pp_type_name="SynDa", sec_names="head[0][0]")
# create plots
rec_4psyn = Record(cell.filter_point_processes(pp_type_name="Syn4PAChDa", sec_names="head[0][0]"), variables="LTD_pre w")
# init and run
h.finitialize(-70 * mV)
run_sim(runtime=500, warmup=WARMUP)
# plot
rec_4psyn.plot()
plt.show()
neck_nseg=10,
sections='dend')
cell.add_soma_mechanisms()
cell.add_apical_mechanisms(sections='dend head neck')
cell.add_4p_synapse(sec_names="head",
loc=1) # add synapse at the top of each spine's head
# stimulation
stim = NetStimCell("stim_cell").add_netstim("stim1",
start=WARMUP + 1,
number=300,
interval=1)
cell.add_netcons(source=stim, weight=WEIGHT, delay=1)
# create plots
rec_w = Record(cell.filter_point_processes(pp_type_name="Syn4P",
sec_names="head[0][0]"),
variables="w")
rec_v = Record(cell.filter_secs(sec_names="head[0]"),
locs=1.0,
variables="v")
# init and run
h.finitialize(-70 * mV)
run_sim(runtime=500, warmup=WARMUP)
# plot
rec_w.plot()
rec_v.plot()
plt.show()