Search found 14 matches

by sanjaybioe
Tue Oct 29, 2013 7:56 am
Forum: UNIX/Linux
Topic: nrnivmodl compiling in Linux
Replies: 8
Views: 11622

Re: nrnivmodl compiling in Linux

Dear Tom, what if it is opensuse 13.1? I too get the same error on lncurses.
by sanjaybioe
Mon Oct 28, 2013 11:39 pm
Forum: Specific models
Topic: X-axis changes scale when adding color to plot
Replies: 2
Views: 11654

Re: X-axis changes scale when adding color to plot

Hi Sam, it works as you suggested.

Thanks.
by sanjaybioe
Mon Oct 28, 2013 1:41 am
Forum: Specific models
Topic: X-axis changes scale when adding color to plot
Replies: 2
Views: 11654

X-axis changes scale when adding color to plot

Hi, I am working on the model with acc.no. 139421 authored by Sam Neymotin et.al. The model runs on linux/ubuntu OS (I use xubuntu). The plots in the output are 1) the local field potential (in-vivo) as a voltage trace and 2) the raster plot which shows firing of 3 different individual cell types (p...
by sanjaybioe
Sat Dec 15, 2012 1:18 am
Forum: Modeling networks
Topic: simulate an interneuron
Replies: 8
Views: 5444

Re: simulate an interneuron

I also wanted to simulate an inhibitory effect using Exp2Syn mechanism and as Ted suggested, when the reversal potential of synapse is more negative than the spike threshold, the synapse shows inhibitory effect. But at that very negative reversal potential, if I increse the weight of the synapse, th...
by sanjaybioe
Thu Apr 12, 2012 12:26 am
Forum: The GUI
Topic: Importing two different morphologies into same canvas/GUI
Replies: 3
Views: 7508

Re: Importing two different morphologies into same canvas/GU

Dear Ted, thanks for the advice. But at the beginning of your reply have you missed some word/phrase or sentence, in the dotted portion of "First, define two different cell classes--one for each morphology. Second, write a program that creates as many instances of each class as you need................
by sanjaybioe
Thu Apr 05, 2012 12:32 am
Forum: The GUI
Topic: Importing two different morphologies into same canvas/GUI
Replies: 3
Views: 7508

Importing two different morphologies into same canvas/GUI

How do I import two different neuron models (two neurons with two morphologies) thru the GUI and create a connectivity between them? If I have a template of a model and say there are 4 copies of the neuron created from that template,how can I incorporate slightly different distribution of channels i...
by sanjaybioe
Wed Mar 21, 2012 1:57 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Fixing unit inconsistensies
Replies: 1
Views: 1222

Fixing unit inconsistensies

Is there any tutorial on how to fix unite inconsistensies while compiling MOD files? The link on how to compile MOD files ( http://www.neuron.yale.edu/neuron/static/docs/nmodl/mswin.html ) has a sublink ( http://www.neuron.yale.edu/static/docs/units/units.html ) for this which is not working. Please...
by sanjaybioe
Thu Mar 15, 2012 11:33 pm
Forum: Other questions
Topic: Research funding options
Replies: 1
Views: 1226

Research funding options

Dear Ted,

Is there any research funding information support available for NEURON users? Or is any funding option available as such for biophysical model development through NEURON?
by sanjaybioe
Wed Jan 18, 2012 2:28 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Adding NMODL-specified mechanisms to a model
Replies: 1
Views: 1812

Adding NMODL-specified mechanisms to a model

Dear Ted, I have successfully created copies of CA3 pyramidal neurons from the model 101629, using the GUI. The hoc file generated in the process ("new21nov11.hoc") has the template. There is a simultaneous .ses file also created. I created a folder X having a mainfile.hoc which has the statements l...
by sanjaybioe
Thu Nov 24, 2011 11:27 pm
Forum: Anatomically detailed models
Topic: "Procedure too long" error message
Replies: 1
Views: 1837

"Procedure too long" error message

Dear Ted, Further to your advice, I tried out a different way of making a template but am ending up in an error. From the model with accession number 101629 by Migliore, I took the geometry/morphology file alone(geo-cell1zr.hoc), and tried to create a template by adding appropriate lines of code, re...
by sanjaybioe
Thu Oct 27, 2011 2:25 am
Forum: The GUI
Topic: Can't see the cells in my network
Replies: 1
Views: 5940

Can't see the cells in my network

After importing the CA3 pyramidal cell morphology from neuromorpho.org to the cell builder, I used the point processes option to put synapses on distal portions of the dendrites. I created a toy network of two neurons using network builder and using GUI tried to connect one neuron (source) to anothe...
by sanjaybioe
Wed Oct 26, 2011 2:16 am
Forum: The GUI
Topic: GUIs not saving properly
Replies: 1
Views: 5592

GUIs not saving properly

I have imported a morphology of CA3 pyramidal neuron from neuromorpho.org to the GUI cell builder. After distributing biophysical parameters and testing the model, it is saved into a folder as a .ses file. Once I reopen it and make further testing of the model and save it again with the same name, t...
by sanjaybioe
Fri Jul 08, 2011 11:24 pm
Forum: Getting started
Topic: Connect two neurons using hoc code
Replies: 3
Views: 4122

Re: Connect two neurons using hoc code

Hi dear Ted, Thanks for that help. I have tried what you suggested and was successful. I included the Exp2Syn for the synapse. I used a single line code having NetCon just describing the source. target and synaptic weight. But I could not figure out how to change the time constants in Exp2Syn. I hav...
by sanjaybioe
Sat Jun 11, 2011 2:47 am
Forum: Getting started
Topic: Connect two neurons using hoc code
Replies: 3
Views: 4122

Connect two neurons using hoc code

I have written the code for the geometric and biophysical features of a simple neuron using hoc code. I would like to have two identical neurons to exist and connect the axon1 of neuron1 to the dend2[1], using an alpha synapse. Neuron1 is being stimulated at the soma using a current pulse. I would l...