p18
cell-loc
synapses
minor
params
smalldt
onsurface
migliore-1a
rallpack3
cwvclamp
vcsteps
rallpack1
smartrec
ivconv
ivconvm
mean-variance-iv-stoch
stochdet
channel-functions
stimtest
functest
migliore-pass
psd
cianmar30
mean-variance
rallpack2
rallpack3-stoch
rallpack3-stoch2
chowwhite
multirec
mainen
soma-spikes-stochastic
soma-spikes-continuous
p1-f1-mean-variance
rallpack1-IE
rallpack2-IE
singlecpt
synstim
resonance
manychannels

mean-variance-iv-stoch (runivstoch.xml)

I-V curves for the same model as is used for mean variance analysis.

Total CPU time 0.7700 seconds; at 11:45:18 Thu 24 Sep 2009

CompartmentsStochastic
channels / cpmts
Continuous
channels / cpmts
Non Gated
channels / cpmts
time/mstimestep/msnapop:densityCPU Time / s
15 / 10 / 00 / 040.00.010.4 0.110
125 / 10 / 00 / 040.00.012 0.140
150 / 10 / 00 / 040.00.014 0.200
1101 / 10 / 00 / 040.00.018 0.160
1201 / 10 / 00 / 040.00.0116 0.160

Morphology: cell

 

 

 

 

 

Predefined views

16

All files

ModelPreprocessedOutupt dataReference data etc
runivstoch.xml
cell.xml
membrane.xml
environment.xml
recording-iv.xml
na1.xml
out-0.4.ppp
out-2.ppp
out-4.ppp
out-8.ppp
out-16.ppp
log.txt
out-0.4.sum
out-2.sum
out-4.sum
out-8.sum
out-16.sum
out-0.4.dat
out-0.4.txt
out-2.dat
out-2.txt
out-4.dat
out-4.txt
out-8.dat
out-8.txt
out-16.dat
out-16.txt
ref-continuous.txt

Model

Archive file of the complete model: mean-variance-iv-stoch.jar

runivstoch.xml

<PSICSRun  timeStep="0.01ms" runTime="40ms" startPotential="-80mV"
	morphology="cell"
	environment="environment"
	properties="membrane"
	access="recording-iv"
	stochThreshold="1000">

	<StructureDiscretization baseElementSize="3um"/>

<RunSet vary="napop:density" values="[0.4, 2, 4, 8, 16]per_um2"
                filepattern="out-$">
 		<CommandSet vary="vstep:to" values="[-60, -40, -30, -20, -10, 0, 10, 20, 30, 40]mV"/>
	</RunSet>



<About>
  	I-V curves for the same model as is used for mean variance analysis.
 </About>


 


	<ViewConfig>
		<LineGraph width="500" height="400">
		<XAxis min="0" max="250" label="time / ms"/>
		<YAxis min="-80" max="60" label="current / nA"/>
		<LineSet file="out-16.txt" color="green"/>
		 <View id="16" xmin="0." xmax="40." ymin="-600." ymax="20."/>
		</LineGraph>
	</ViewConfig>
</PSICSRun>

cell.xml

<CellMorphology id="cell">

    <Point id="p0" x="0" y="0" z="0" r="1."/>

</CellMorphology>

membrane.xml

<CellProperties id="membrane"
      cytoplasmResistivity="100ohm_cm"
      membraneCapacitance="1.e-8uF_per_um2">

	<ChannelPopulation id="napop" channel="na1" density="16per_um2"/>


</CellProperties>

environment.xml

<CellEnvironment id="environment">
	<Ion id="Na" name="Sodium" reversalPotential="80mV"/>
	<Ion id="K" name="Potassium" reversalPotential="-80mV"/>
</CellEnvironment>

recording-iv.xml

<Access id="recording-iv" saveInterval="0.01ms">

	<VoltageClamp at="p0" lineColor="red" hold="-80.0mV">
		<VoltagePulse id="vstep" start="5ms" to="0mV"
			      duration="20ms"/>

	</VoltageClamp>

</Access>

na1.xml

<KSChannel id="na1" gSingle="30pS" permeantIon="Na">
	<ClosedState id="c1"/>
	<OpenState id="o1"/>
	<ClosedState id="c2"/>

	<VHalfTransition from="c1" to="o1" vHalf = "-35mV" z="4.5e" gamma="0.8" tau="0.55ms" tauMin="0.1ms"/>

	<VHalfTransition from="o1" to="c2" vHalf = "-70mV" z="1.1e" gamma="0.90" tau="12.0ms" tauMin="1.5ms"/>

</KSChannel>