mean-variance-iv-det (runivdet.xml)
I-V curves for the same model as is used for mean variance analysis.
Total CPU time 0.4900 seconds; at 11:23:36 Mon 14 Apr 2008
| Compartments | Stochastic channels / cpmts | Continuous channels / cpmts | Non Gated channels / cpmts | time/ms | timestep/ms | napop:density | CPU Time / s |
| 1 | 0 / 0 | 5 / 1 | 0 / 0 | 40.0 | 0.01 | 0.4 | 0.0900 |
| 1 | 0 / 0 | 25 / 1 | 0 / 0 | 40.0 | 0.01 | 2 | 0.100 |
| 1 | 0 / 0 | 50 / 1 | 0 / 0 | 40.0 | 0.01 | 4 | 0.100 |
| 1 | 0 / 0 | 101 / 1 | 0 / 0 | 40.0 | 0.01 | 8 | 0.100 |
| 1 | 0 / 0 | 201 / 1 | 0 / 0 | 40.0 | 0.01 | 16 | 0.100 |
 |
Morphology: cell
Predefined views
0.4
2
4
8
16
All files
| Model | Preprocessed | Outupt data | Reference data etc |
| runivdet.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 |
Model
Archive file of the complete model: mean-variance-iv-det.jarrunivdet.xml
<PSICSRun timeStep="0.01ms" runTime="40ms" startPotential="-80mV"
morphology="cell"
environment="environment"
properties="membrane"
access="recording-iv"
stochThreshold="0">
<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-0.4.txt" color="pink"/>
<View id="0.4" xmin="0." xmax="40." ymin="-25." ymax="5."/>
</LineGraph>
</ViewConfig>
<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-2.txt" color="red"/>
<View id="2" xmin="0." xmax="40." ymin="-100." ymax="10."/>
</LineGraph>
</ViewConfig>
<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-4.txt" color="orange"/>
<View id="4" xmin="0." xmax="40." ymin="-180." ymax="10."/>
</LineGraph>
</ViewConfig>
<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-8.txt" color="blue"/>
<View id="8" xmin="0." xmax="40." ymin="-300." ymax="10."/>
</LineGraph>
</ViewConfig>
<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="1uF_per_cm2">
<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>