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
Compartments | Stochastic channels / cpmts | Continuous channels / cpmts | Non Gated channels / cpmts | time/ms | timestep/ms | napop:density | CPU Time / s |
1 | 5 / 1 | 0 / 0 | 0 / 0 | 40.0 | 0.01 | 0.4 | 0.110 |
1 | 25 / 1 | 0 / 0 | 0 / 0 | 40.0 | 0.01 | 2 | 0.140 |
1 | 50 / 1 | 0 / 0 | 0 / 0 | 40.0 | 0.01 | 4 | 0.200 |
1 | 101 / 1 | 0 / 0 | 0 / 0 | 40.0 | 0.01 | 8 | 0.160 |
1 | 201 / 1 | 0 / 0 | 0 / 0 | 40.0 | 0.01 | 16 | 0.160 |
Morphology: cell
Predefined views
16
All files
Model | Preprocessed | Outupt data | Reference 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.jarrunivstoch.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>