Search found 29 matches

by auatai
Wed Apr 07, 2010 1:40 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Setting the basal level for Intracellular Calcium Concentrat
Replies: 22
Views: 17211

Re: Setting the basal level for Intracellular Calcium Concentrat

Dear Sir, But if one wants to leave the rate constants unchanged and use the membrane's ion channels plus a "constant ca source" to force resting cai to a desired value, the question is how to find the required intensity of the "constant ca source." I'm going to have to think about this some more. A...
by auatai
Thu Apr 01, 2010 9:42 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: User defined functions in VERBATIM
Replies: 4
Views: 2281

Re: User defined functions in VERBATIM

Thank you sir for showing me the approach. I'll work on it and in case of any problems will revert to you.
by auatai
Thu Apr 01, 2010 1:27 am
Forum: Adding new mechanisms and functions to NEURON
Topic: User defined functions in VERBATIM
Replies: 4
Views: 2281

User defined functions in VERBATIM

Hi ,

How can we define and use a user defined function in nmodl within a verbatim block ?
by auatai
Sat Mar 27, 2010 10:20 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: Setting the basal level for Intracellular Calcium Concentrat
Replies: 22
Views: 17211

Re: Setting the basal level for Intracellular Calcium Concentrat

Dear Sir,

Were you able to think out a way of initializing the cai? I tried doing it by adjusting the pump parameters but then the behavior of the model changed a lot from what I wanted it to be.

Regards
by auatai
Sun Mar 21, 2010 11:55 pm
Forum: Other questions
Topic: How to change the unit in the grapher
Replies: 6
Views: 2842

Re: How to change the unit in the grapher

Thanks Ted !
by auatai
Sun Mar 21, 2010 4:14 am
Forum: Other questions
Topic: How to change the unit in the grapher
Replies: 6
Views: 2842

Re: How to change the unit in the grapher

Dear Ted, From your reply to the above query, am I correct in understanding that, if I have specified the units for cai as (mM) and on plotting soma.cai(0.5), I get a plot wherein the crosshair shows me a value of say 0.002 for the y-coordinate at a certain point, then the value of cai at that insta...
by auatai
Sun Mar 21, 2010 12:02 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Setting the basal level for Intracellular Calcium Concentrat
Replies: 22
Views: 17211

Re: Setting the basal level for Intracellular Calcium Concentrat

Thank you Ted for sparing the time to help me out.

Meanwhile, I'll work on the guidelines given by you.
by auatai
Sat Mar 20, 2010 12:55 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Setting the basal level for Intracellular Calcium Concentrat
Replies: 22
Views: 17211

Re: Setting the basal level for Intracellular Calcium Concentrat

Dear Ted, As suggested by you, i cleaned up the code after starting from scratch. Also as you had advised, i made a toy model with just the soma, into which i inserted the cdp,ca and pas mechanisms. I also inserted the casrc mechanism that you had provided. This is the code for the toy model. load_f...
by auatai
Sun Mar 14, 2010 1:32 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: Setting the basal level for Intracellular Calcium Concentrat
Replies: 22
Views: 17211

Re: Setting the basal level for Intracellular Calcium Concentrat

Thanks Ted. I'll try and do what you have suggested.

with warm regards
by auatai
Thu Mar 11, 2010 6:28 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Setting the basal level for Intracellular Calcium Concentrat
Replies: 22
Views: 17211

Re: Setting the basal level for Intracellular Calcium Concentrat

Dear Sir, I tried initializing cai as suggested by you. Firstly the NMODL source code threw up an error on compilation "Translating casrc.mod into casrc.c Warning: ix undefined. (declared within VERBATIM?) ....." . To resolve this I added the statement "ix (mA/cm2)" within the assigned block. (I hop...
by auatai
Thu Mar 11, 2010 12:48 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Setting the basal level for Intracellular Calcium Concentrat
Replies: 22
Views: 17211

Re: Setting the basal level for Intracellular Calcium Concentrat

Dear Sir,

I am delighted to receive such a enlightening and elaborate reply. I can't thank you enough for showing me the way forward.

With warm regards
by auatai
Wed Mar 10, 2010 9:24 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: Setting the basal level for Intracellular Calcium Concentrat
Replies: 22
Views: 17211

Re: Setting the basal level for Intracellular Calcium Concentrat

Sir,
I have decided to use the cdp mechanism. Now, how to set the basal level of cai.

regards
by auatai
Wed Mar 10, 2010 2:39 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Setting the basal level for Intracellular Calcium Concentrat
Replies: 22
Views: 17211

Setting the basal level for Intracellular Calcium Concentrat

Dear Sir, I am working on a intracellular calcium diffusion, buffering and pump mechanism and am using the cdp.mod file (from the link provided at Errata for the Enhanced Preprint of "Expanding NEURON's Repertoire of Mechanisms with NMODL") I have added this mechanism in the model "Pyramidal Neuron ...
by auatai
Fri Feb 05, 2010 2:36 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Two Dimensional Arrays
Replies: 1
Views: 1357

Two Dimensional Arrays

Hi ,
I am new to Neuron. I am working on extracellular calcium diffusion and i need to use two dimensional arrays in my mod file on calcium diffusion. Is it possible ? If yes then how do I do it, if No, then is there a way around by using pointers or structures ?

thanks