Parallel network simulations with NEURON (Migliore et al 2006)

 Download zip file   Auto-launch 
Help downloading and running models
Accession:64229
The NEURON simulation environment has been extended to support parallel network simulations. The performance of three published network models with very different spike patterns exhibits superlinear speedup on Beowulf clusters.
Reference:
1 . Migliore M, Cannia C, Lytton WW, Markram H, Hines ML (2006) Parallel network simulations with NEURON. J Comput Neurosci 21:119-29 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism:
Cell Type(s):
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: NEURON;
Model Concept(s): Methods;
Implementer(s): Hines, Michael [Michael.Hines at Yale.edu];
/
netmod
parbulbNet
README *
cadecay.mod *
flushf.mod *
kA.mod *
kca.mod *
kfasttab.mod *
kM.mod *
kslowtab.mod *
lcafixed.mod *
nafast.mod *
nagran.mod *
nmdanet.mod *
bulb.hoc
calcisilag.hoc *
ddi_baseline.gnu *
ddi_baseline.ses *
experiment_ddi_baseline.hoc *
experiment_odour_baseline.hoc *
granule.tem *
init.hoc *
input.hoc *
input1 *
mathslib.hoc *
mitral.tem *
modstat
mosinit.hoc *
odour_baseline.gnu *
odour_baseline.ses *
par_batch1.hoc
par_bulb.hoc
par_calcisilag.hoc
par_experiment_ddi_baseline.hoc
par_granule.tem
par_init.hoc
par_input.hoc
par_mitral.tem
par_netpar.hoc
par_notes
parameters_ddi_baseline.hoc *
parameters_odour_baseline.hoc *
screenshot.png *
tabchannels.dat *
tabchannels.hoc *
test1.sh
                            
# gnuplot file to produce a figure similar to Figure 8
# in Davison A.P., Feng J. and Brown D. (2003) J. Neurophysiol.

# Note that the figure produced will not match exactly the
# published figure due to differences in the sequence of
# random numbers used to set up the network.

# gnuplot is available from http://www.gnuplot.info

set term postscript portrait enhanced mono solid "Helvetica" 8
set output "odour_baseline.eps"

set size 0.49,0.5
set multiplot

set size 0.445,0.115
set tmargin 0
set bmargin 0
set lmargin 0
set rmargin 0
set noxtics
set noytics
set nokey

set noborder
set origin 0,0.375
set label 1 '{/Helvetica=14 A}' at screen 0.01,0.475
plot [0:3000][-0.5:35.5] "odour_baseline.ras" using 4:3 with points pointtype 7 pointsize 0.3

set origin 0,0.25
set label 1 '{/Helvetica=14 B}' at screen 0.01,0.35
set border 1 linewidth 0.5
plot [0:3000] "odour_baseline.smhist" with lines linewidth 0.5

set origin 0,0.125
set noborder
set label 1 '{/Helvetica-Bold=14 C}' at screen 0.01,0.225
plot [0:3000] "odour_baseline.gran.ras" using 4:3 with dots

set origin 0,0.0
set border 1 linewidth 0.5
set label 1 '{/Helvetica-Bold=14 D}' at screen 0.01,0.10
set arrow from 200,70 to 700,70 nohead linewidth 2
set label 2 '500 ms' at 250,55
plot [0:3000] "odour_baseline.gran.smhist" with lines linewidth 0.5

set size 0.05,0.115
set origin 0.45,0.375
set nolabel 1
set border 2 lw 0.5
set noarrow
#plot "input1.nbar" using 1:($2+1) with steps linetype 2 linewidth 0.5
set arrow from 5,-1.5 to 25,-1.5 nohead lw 2
set label 2 '{/=8 10 s^{/=6 -1}}' at -1,-5
#plot [0:34][] "odour_baseline.nbar" using 1:($2+1.1) with steps linewidth 0.5

set origin 0.45,0.125
set noarrow
set nolabel
#plot [0:34][] "odour_baseline2.gran.nbar" using 1:($2+1) with steps linewidth 0.2

Loading data, please wait...