Comments (4)
Yup, it uses that synapse
AmpaNmda
as well as:
GranuleSpine
ThreshDetect
FastInhib
What are your thoughts on handling the spine in NML? Should that be rolled into the synapse or separated out into another object? Let me know if you have a synapse with a spine example.
Below is the meat of where the synapse is constructed:
https://github.com/OpenSourceBrain/MiglioreEtAl14_OlfactoryBulb3D/blob/master/NEURON/mgrs.py
lines 99-115
if self.msecden:
self.md = h.ThreshDetect(self.msecden(xm))
self.fi = h.FastInhib(self.msecden(xm))
self.fi.gmax = params.inh_gmax
self.fi.tau1 = params.fi_tau1
self.fi.tau2 = params.fi_tau2
pc.set_gid2node(self.md_gid, pc.id())
pc.cell(self.md_gid, h.NetCon(self.md, None), 1)
if self.gpriden:
self.spine = h.GranuleSpine()
self.spine.neck.connect(self.gpriden(xg))
self.gd = h.ThreshDetect(self.spine.head(0.5))
self.ampanmda = h.AmpaNmda(self.spine.head(0.5))
self.ampanmda.gmax = params.exc_gmax
pc.set_gid2node(self.gd_gid, pc.id())
pc.cell(self.gd_gid, h.NetCon(self.gd, None), 1)
from miglioreetal14_olfactorybulb3d.
If the spine section gets connected to the existing Granule cell, I'd suspect that section gets exported into the GCxx.cell.nml file, as long as the export is done after the connections are made...
You could look in the ModelView for the simulation to see if they are there in the individual GCs...
from miglioreetal14_olfactorybulb3d.
The syns have been converted and can be found under NeuroML2/Synapses.
from miglioreetal14_olfactorybulb3d.
This has been done here: #25
from miglioreetal14_olfactorybulb3d.
Related Issues (20)
- Rename groups in exported cells HOT 7
- Add channel density specifications in export_mitral.py HOT 9
- Add test script for creating and running one Mitral cell in NEURON HOT 15
- Create smaller scale version of network that can run on single processor HOT 5
- Export network structure to NML2 HOT 15
- Resolve issue of disconnected axon hillock HOT 4
- GCs do not appear to have position information HOT 1
- Implement helper method for converting fraction along segmentGroup to fraction along segment (with id)) HOT 1
- Export or create NML2 cell file(s) for granule cell HOT 2
- Visualise/verify network connectivity as exported in NML2 HOT 17
- cell with multiple specificCapacitances OR directly connect segments of different cells together HOT 2
- Python scripts for exporting Mitral/Granule cells should be (re)added HOT 3
- Synapse conditional NET RECEIVE logic introduces delays
- running jnml -netpyne results in error related to non0-1 parentFractionAlong
- Mitral cells are not translated correctly when positioned via the network location tag
- Channel initialization contributes to conversion error
- OMV: Test Mitral cell across multiple inputs & compare to NEURON HOT 1
- Adding license info HOT 2
- Python 3 HOT 1
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from miglioreetal14_olfactorybulb3d.