Search found 77 matches

by shyam_u2
Mon Aug 05, 2013 8:23 am
Forum: Other questions
Topic: Bad_alloc error
Replies: 3
Views: 4972

Re: Bad_alloc error

Yes I do record data from a lot of neurons.
If I run it for a shorter time, I don't get any errors.
How do I get rid of this error ?
by shyam_u2
Mon Aug 05, 2013 3:21 am
Forum: Other questions
Topic: Bad_alloc error
Replies: 3
Views: 4972

Bad_alloc error

When I run my large scale network model, I get this following error, When the model finishes running for 800 ms, terminate called after throwing an instance of 'std::bad_alloc' what(): St9bad_alloc [tombo11408:12824] *** Process received signal *** [tombo11408:12824] Signal: Aborted (6) [tombo11408:...
by shyam_u2
Thu Jul 04, 2013 12:13 pm
Forum: Other questions
Topic: Usage of Celsius
Replies: 2
Views: 2809

Usage of Celsius

I have a network model with two separate population of neurons without any connection with each other. I am running the model in mpi environment. Population 1 rests at 23 C and population 2 at 30 C. I assign their temperature using the keyword 'celsius'. I observe that the spiking behivour of Popula...
by shyam_u2
Thu Jun 13, 2013 11:21 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: model of saturating synaptic transmission
Replies: 3
Views: 4962

Re: model of saturating synaptic transmission

That was very explanative indeed! Thank you. So when the transmitter is present, time course of O is governed by 1/f+r and when T=0 (transmitter absent) it is governed by 1/r (dO/dt = -O*r). So if have a synaptic conductance waveform, I fit a mono exponential curve separately to rise regime with tim...
by shyam_u2
Wed Jun 12, 2013 2:09 am
Forum: Adding new mechanisms and functions to NEURON
Topic: model of saturating synaptic transmission
Replies: 3
Views: 4962

model of saturating synaptic transmission

Hello Ted, With reference to this mechanism in Model DB, https://senselab.med.yale.edu/modeldb/ShowModel.asp?model=112685&file=\Golgi_cell\Synapse.mod Given a Synaptic current waveform Isyn(t) say for AMPA synapse, How do I compute the forward and backward rate constants (r1 and 1/tau2 ) of this...
by shyam_u2
Tue Apr 16, 2013 12:11 pm
Forum: Optimization
Topic: using MRF for fitting two outputs at same time
Replies: 6
Views: 19975

using MRF for fitting two outputs at same time

I am trying to fit my model current with experimental traces for two different stimulation protocol. Say I have protocol 1 which produces output A and protocol 2 produces output B. I want to fit output A and B to their corresponding experimental data at the same time ie., I want to find parameters x...
by shyam_u2
Sat Apr 06, 2013 12:27 pm
Forum: Other questions
Topic: Running two simulations
Replies: 1
Views: 1127

Running two simulations

In my network model I want to run two simulations. Simulation 1 runs for 1000 ms and Simulation 2 for another 1000 ms. Simulation 2 uses a variable 'var1' which is calculated from the results of simulation 1. How do I do this ? The condition is that simulation 2 should not be a continuation of simul...
by shyam_u2
Mon Mar 18, 2013 3:51 am
Forum: Adding new mechanisms and functions to NEURON
Topic: GIRK channels
Replies: 10
Views: 7578

Re: GIRK channels

Thank you very much. That was really helpful. I am curious to know certain things regarding the spatial extent of G protein modulation. In my model mglur2 is located along extra synaptic dendritic membrane away from the synaptic sites so implementing GIRK channels by density mechanism and synaptic c...
by shyam_u2
Sun Mar 17, 2013 7:32 am
Forum: Adding new mechanisms and functions to NEURON
Topic: GIRK channels
Replies: 10
Views: 7578

Re: GIRK channels

OK. Sorry that I was not explanative. Say that I have a presynaptic neuron A which is connected to a Postsynaptic neuron B by AMPA and mglur(metabotropic glutamate receptor). Glutamate released from A binds to AMPA on neuron B and causes an EPSC. In a similar way glutamate also binds to mglur and vi...
by shyam_u2
Fri Mar 15, 2013 3:26 am
Forum: Adding new mechanisms and functions to NEURON
Topic: GIRK channels
Replies: 10
Views: 7578

Re: GIRK channels

I want subsequent spikes to produce a "summating" effect on the IPSC of post synaptic cell instead of just prolonging the effect for a specific duration. For that purpose, I inserted a piece of code as given below. Just wanna confirm whether all is good with this approach. The new line of ...
by shyam_u2
Wed Mar 13, 2013 4:03 am
Forum: Adding new mechanisms and functions to NEURON
Topic: GIRK channels
Replies: 10
Views: 7578

Re: GIRK channels

Can you tell a bit more about this G protein accumulation ?
by shyam_u2
Wed Mar 13, 2013 4:00 am
Forum: Adding new mechanisms and functions to NEURON
Topic: GIRK channels
Replies: 10
Views: 7578

Re: GIRK channels

Perfect. Thank you Ted. I will let you know if I face any problem..
by shyam_u2
Tue Mar 12, 2013 4:23 am
Forum: Adding new mechanisms and functions to NEURON
Topic: GIRK channels
Replies: 10
Views: 7578

GIRK channels

I want to model GIRK (G protein coupled inward rectifying potassium channel). It seems that GIRK channels are activated by G-proteins/secondary messengers (activated by metabotropic glutamate receptor) and they also seem to have Voltage dependence ( I want to model the activation/inactivation kineti...
by shyam_u2
Wed Feb 27, 2013 8:43 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: Injecting high current value
Replies: 6
Views: 3204

Re: Injecting high current value

Thank you Hines.. I will send the zip version of the code to you..
by shyam_u2
Thu Feb 21, 2013 8:45 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: Injecting high current value
Replies: 6
Views: 3204

Re: Injecting high current value

I have seen this segmentation error at many occasion. Can you please explain what does it actually mean ?